Contig-U01734-1
Contig ID Contig-U01734-1
Contig update 2001. 8.29
Contig sequence
>Contig-U01734-1 (Contig-U01734-1Q) /CSM_Contig/Contig-U01734-1Q.Seq.d
CTATCTATTTTTAAAAAATTGAAATAAATAAAAAAAAAAAAAAAAAAAAA
AAAAAAAGTTGAATAAAATAAAATAAAAGCTGTTTAAAAATAATTAATAA
TAATAATAATAACAATAATTAAAATATTAAAAAATAAAAAAAATAAAAAA
ATAAAAAAATGAAATTTCAATTTTCATCGCCCAGTAAAATATTTCTGTTT
TCAAGTGTAATTTTGATATTAATATTTATAGGAATAAAATTTGAACTACT
TGAAGATACAAATAGCAACAGAAATGATAAATTTAATAATATAATTACTA
GATTTATAAATTATAATATCGATGACTCAATTTATAAAAACAAACAACAA
CAACAACAATTTTCAAATAAAATTTATTCAAATGAAAAGAAAATTTTATT
AAAAAATAAAATAATTGATACAACAATTAAACCTTCAATAAATATTAATA
ATAA----------TAAAGGGGAAATTAATCGAACAATACCAATGTTTCT
CAAGGTTTAATGAAGATTTTTTTTCAAGACAAATGAAAGGGGGCNAATTT
AGTTACATCTCTTTAAATAAATTTTTTTTTTAATATATATAATATACTTT
TTTTTTTTTTTCTTTTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Gap gap included
Contig length 669
Chromosome number (1..6, M) 4
Chromosome length 5430582
Start point 4092739
End point 4093310
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 2
Link to clone list U01734
List of clone(s)

est1=SSF879F,1,455
est2=SSF879Z,456,671
Translated Amino Acid sequence
iyf*kieinkkkkkkkkks*ik*nksclkiinnnnnnnn*nikk*kk*KNKKMKFQFSSP
SKIFLFSSVILILIFIGIKFELLEDTNSNRNDKFNNIITRFINYNIDDSIYKNKQQQQQF
SNKIYSNEKKILLKNKIIDTTIKPSININN---

---KGKLIEQYQCFSRFNEDFFSRQMKGGXFSYISLNKFFF*yi*ytffffsflkkkkkk
kkkkkkkkkkkkkk


Translated Amino Acid sequence (All Frames)
Frame A:
lsifkklk*ikkkkkkkkkve*nkikav*k*liiiiitiikilknkknkkikk*nfnfhr
pvkyfcfqv*f*y*yl*e*nlnylkiqiateminlii*lldl*iiismtqfiktnnnnnn
fqikfiqmkrkfy*kik*liqqlnlq*ilii---

---*rgn*snntnvsqglmkiffqdk*kganlvtsl*infffniynilfffflf*kkkkk
kkkkkkkkkkkkkk

Frame B:
ylflkn*nk*kkkkkkkkklnkik*klfknn******q*lky*kikkikk*kneisifia
q*nisvfkcnfdiniyrnki*tt*ryk*qqk**i**yny*iykl*yr*lnl*kqttttti
fk*nlfk*kenfikk*nn*ynn*tfnky***---

---kgeinrtipmflkv**rfffktnergxi*lhlfk*iffliyiiyfffffffkkkkkk
kkkkkkkkkkkkkk

Frame C:
iyf*kieinkkkkkkkkks*ik*nksclkiinnnnnnnn*nikk*kk*KNKKMKFQFSSP
SKIFLFSSVILILIFIGIKFELLEDTNSNRNDKFNNIITRFINYNIDDSIYKNKQQQQQF
SNKIYSNEKKILLKNKIIDTTIKPSININN---

---KGKLIEQYQCFSRFNEDFFSRQMKGGXFSYISLNKFFF*yi*ytffffsflkkkkkk
kkkkkkkkkkkkkk

own update 2004. 6. 7
Homology vs CSM-cDNA
Query= Contig-U01734-1 (Contig-U01734-1Q)
/CSM_Contig/Contig-U01734-1Q.Seq.d
(679 letters)

Database: CSM
8361 sequences; 7,895,291 total letters


Score E
Sequences producing significant alignments: (bits) Value

Contig-U01734-1 (Contig-U01734-1Q) /CSM_Contig/Conti... 355 6e-98
Contig-U12799-1 (Contig-U12799-1Q) /CSM_Contig/Conti... 40 0.004
Contig-U13199-1 (Contig-U13199-1Q) /CSM_Contig/Conti... 38 0.017
Contig-U12085-1 (Contig-U12085-1Q) /CSM_Contig/Conti... 38 0.017
Contig-U10406-1 (Contig-U10406-1Q) /CSM_Contig/Conti... 38 0.017
Contig-U14718-1 (Contig-U14718-1Q) /CSM_Contig/Conti... 36 0.066
Contig-U11948-1 (Contig-U11948-1Q) /CSM_Contig/Conti... 36 0.066
Contig-U11420-1 (Contig-U11420-1Q) /CSM_Contig/Conti... 36 0.066
Contig-U04580-1 (Contig-U04580-1Q) /CSM_Contig/Conti... 36 0.066
Contig-U13086-1 (Contig-U13086-1Q) /CSM_Contig/Conti... 34 0.26

>Contig-U01734-1 (Contig-U01734-1Q) /CSM_Contig/Contig-U01734-1Q.Seq.d
Length = 679

Score = 355 bits (179), Expect = 6e-98
Identities = 179/179 (100%)
Strand = Plus / Plus


Query: 160 tgaaatttcaattttcatcgcccagtaaaatatttctgttttcaagtgtaattttgatat 219
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 160 tgaaatttcaattttcatcgcccagtaaaatatttctgttttcaagtgtaattttgatat 219


Query: 220 taatatttataggaataaaatttgaactacttgaagatacaaatagcaacagaaatgata 279
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 220 taatatttataggaataaaatttgaactacttgaagatacaaatagcaacagaaatgata 279


Query: 280 aatttaataatataattactagatttataaattataatatcgatgactcaatttataaa 338
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 aatttaataatataattactagatttataaattataatatcgatgactcaatttataaa 338


Score = 159 bits (80), Expect = 7e-39
Identities = 99/107 (92%)
Strand = Plus / Plus


Query: 465 taaaggggaaattaatcgaacaataccaatgtttctcaaggtttaatgaagannnnnnnn 524
||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 465 taaaggggaaattaatcgaacaataccaatgtttctcaaggtttaatgaagatttttttt 524


Query: 525 caagacaaatgaaagggggcnaatttagttacatctctttaaataaa 571
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 525 caagacaaatgaaagggggcnaatttagttacatctctttaaataaa 571


Score = 58.0 bits (29), Expect = 2e-08
Identities = 29/29 (100%)
Strand = Plus / Plus


Query: 1 ctatctatttttaaaaaattgaaataaat 29
|||||||||||||||||||||||||||||
Sbjct: 1 ctatctatttttaaaaaattgaaataaat 29


>Contig-U12799-1 (Contig-U12799-1Q) /CSM_Contig/Contig-U12799-1Q.Seq.d
Length = 2583

Score = 40.1 bits (20), Expect = 0.004
Identities = 20/20 (100%)
Strand = Plus / Plus


Query: 277 ataaatttaataatataatt 296
||||||||||||||||||||
Sbjct: 3 ataaatttaataatataatt 22


>Contig-U13199-1 (Contig-U13199-1Q) /CSM_Contig/Contig-U13199-1Q.Seq.d
Length = 1141

Score = 38.2 bits (19), Expect = 0.017
Identities = 19/19 (100%)
Strand = Plus / Minus


Query: 2 tatctatttttaaaaaatt 20
|||||||||||||||||||
Sbjct: 92 tatctatttttaaaaaatt 74


Database: CSM
Posted date: Jun 7, 2004 8:33 AM
Number of letters in database: 7,895,291
Number of sequences in database: 8361

Lambda K H
1.37 0.711 1.31

Gapped
Lambda K H
1.37 0.711 1.31


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 11,195
Number of Sequences: 8361
Number of extensions: 11195
Number of successful extensions: 1217
Number of sequences better than 10.0: 118
length of query: 679
length of database: 7,895,291
effective HSP length: 16
effective length of query: 663
effective length of database: 7,761,515
effective search space: 5145884445
effective search space used: 5145884445
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2009. 5. 5
Homology vs DNA
Query= Contig-U01734-1 (Contig-U01734-1Q) /CSM_Contig/Contig-U01734-1Q.Seq.d
(679 letters)

Database: ddbj_A
102,105,510 sequences; 101,790,757,118 total letters

Searching..................................................done

Score E
Sequences producing significant alignments: (bits) Value N

(U20432) Dictyostelium discoideum TagB (tagB) gene, complete... 341 2e-89 1
(C92705) Dictyostelium discoideum slug cDNA, clone SSF879. 103 4e-38 2
(AU073075) Dictyostelium discoideum slug cDNA, clone SSF879. 161 4e-35 1
(BZ503343) BONDW90TF BO_1.6_2_KB_tot Brassica oleracea genom... 40 0.023 2
(CU633453) Podospora anserina genomic DNA chromosome 3, supe... 50 0.11 1
(AC218628) Bos taurus clone CH240-298P22, WORKING DRAFT SEQU... 36 0.25 2
(ES220070) MpGnorm_ag5_J03 Myzus persicae, tobacco lineage, ... 34 0.33 2
(BV614354) S216P61520RE2.T0 Masuku Pan troglodytes troglodyt... 48 0.44 1
(BV613498) S215P61457FG3.T0 Clara Pan troglodytes troglodyte... 48 0.44 1
(AL356575) Human DNA sequence from clone RP11-340C20 on chro... 48 0.44 1
(EJ902019) 1093018494332 Global-Ocean-Sampling_GS-30-02-01-1... 48 0.44 1
(EI050618) hhd0007ag01.g1 hhd Oryza coarctata genomic clone ... 48 0.44 1
(AC005308) Plasmodium falciparum chromosome 12 clone PFYAC49... 42 0.76 5
(EK443815) 1095462318486 Global-Ocean-Sampling_GS-32-01-01-1... 40 0.94 2
(DQ029097) Haematobia irritans irritans mitochondrion, compl... 34 1.1 2
(DX080177) KBrB092K06F KBrB, Brassica rapa BamHI BAC library... 34 1.2 2
(DX080173) KBrB092K04F KBrB, Brassica rapa BamHI BAC library... 34 1.2 2
(DX054846) KBrB059D09R KBrB, Brassica rapa BamHI BAC library... 34 1.2 2
(EU401918) Bombus hypocrita sapporoensis mitochondrion, part... 38 1.4 3
(AE014845) Plasmodium falciparum 3D7 chromosome 12, section ... 42 1.6 6
(X13337) Neurospora crassa mitochondrial DNA with duplicatio... 46 1.7 1
(AY548158) Neurospora intermedia isolate M1991-60 tRNA-Met g... 46 1.7 1
(DU884384) 398061 Tomato HindIII BAC Library Solanum lycoper... 46 1.7 1
(CU247088) Equus caballus GSS, BAC clone CH241-391O17, SP6 e... 46 1.7 1
(CU026590) Equus caballus GSS, BAC clone CH241-119D11, SP6 e... 46 1.7 1
(CU026586) Equus caballus GSS, BAC clone CH241-119D9, SP6 en... 46 1.7 1
(GE965196) G1219P113FA16.T0 Neurospora crassa cDNA - 7 Days ... 46 1.7 1
(AP009178) Nitratiruptor sp. SB155-2 genomic DNA, complete g... 46 1.7 1
(AK086902) Mus musculus 0 day neonate lung cDNA, RIKEN full-... 42 2.0 2
(AC098594) Homo sapiens chromosome 4 clone RP11-465C6, compl... 44 2.5 2
(CE714850) tigr-gss-dog-17000369504976 Dog Library Canis lup... 34 3.2 3
(AM613818) Entamoeba invadens IP1 GSS, clone inv040a06.q1k. 36 3.3 2
(AC216704) Solanum lycopersicum chromosome 2 clone C02HBa023... 34 3.4 2
(AK088445) Mus musculus 2 days neonate thymus thymic cells c... 42 3.4 2
(EG551016) MM01G16_RP Sugar Beet germination cDNA library Be... 36 4.1 3
(DY270603) KN0AAP7YC10FM1 Fruit-TF Citrus clementina cDNA 5'... 32 4.4 2
(DQ988057) Sepia pharaonis GofC1 16S ribosomal RNA gene, par... 32 4.6 2
(DQ180983) Idiopteron biplagiatum voucher UPOL 000M44 large ... 32 4.6 2
(AF466309) Dictyostelium discoideum serine protease/ABC tran... 44 6.2 2
(AL589727) Human DNA sequence from clone RP11-104N13 on chro... 38 6.3 3
(BV060129) S212P6098FH6.T0 CZECHII/Ei Mus musculus STS genom... 44 6.9 1
(AC162466) Mus musculus 6 BAC RP23-196O2 (Roswell Park Cance... 44 6.9 1
(AC153898) Mus musculus 6 BAC RP23-55J19 (Roswell Park Cance... 44 6.9 1
(BS000598) Pan troglodytes chromosome Y clone:PTB-224I01, co... 44 6.9 1
(AC147337) Pan troglodytes BAC clone CH251-104M9 from Y, com... 44 6.9 1
(AC146215) Pan troglodytes BAC clone CH251-299B14 from Y, co... 44 6.9 1
(AM447766) Vitis vinifera contig VV78X021622.3, whole genome... 44 6.9 1
(AC215628) Populus trichocarpa clone POP027-K15, complete se... 44 6.9 1
(AR375238) Sequence 244 from patent US 6605709. 44 6.9 1
(AL357333) Human DNA sequence from clone RP11-699H2 on chrom... 44 6.9 1
(AC102450) Mus musculus chromosome 6 clone RP24-219K6 map 6,... 44 6.9 1
(CU915465) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 6.9 1
(AC068882) Homo sapiens chromosome 4 clone RP11-465C6 map 4,... 44 6.9 1
(AC233054) Medicago truncatula clone mth2-70d13, WORKING DRA... 44 6.9 1
(FH931251) CHO_NF2025xl19f1.ab1 CHO_NF2 Nicotiana tabacum ge... 44 6.9 1
(ER443528) 1092963822123 Global-Ocean-Sampling_GS-35-01-01-1... 44 6.9 1
(ER337690) 1092344318689 Global-Ocean-Sampling_GS-34-01-01-1... 44 6.9 1
(EK368899) 1095469408599 Global-Ocean-Sampling_GS-31-01-01-1... 44 6.9 1
(EK274040) 1095462269680 Global-Ocean-Sampling_GS-31-01-01-1... 44 6.9 1
(EJ910634) 1093018536876 Global-Ocean-Sampling_GS-30-02-01-1... 44 6.9 1
(EJ780189) 1093017245728 Global-Ocean-Sampling_GS-30-02-01-1... 44 6.9 1
(AM614375) Entamoeba invadens IP1 GSS, clone inv048a06.q1k. 44 6.9 1
(EJ357878) 1092963672934 Global-Ocean-Sampling_GS-28-01-01-1... 44 6.9 1
(EI144498) DH001N20_F1.ab1 Brachypodium distachyon Bd21 Hind... 44 6.9 1
(DX518969) DH001YF_N20_N20Z_068.ab1 Brachypodium distachyon ... 44 6.9 1
(DU917824) 336555 Tomato EcoRI BAC Library Solanum lycopersi... 44 6.9 1
(DU491805) 1098415688460 CHORI-243 Ovis aries genomic clone ... 44 6.9 1
(DE958219) Macropus eugenii DNA, BAC clone: MEB1-158L24_F, 5... 44 6.9 1
(BZ395635) EINAK47TF EI_10_12_KB Entamoeba invadens genomic ... 44 6.9 1
(BZ393256) EINAI49TR EI_10_12_KB Entamoeba invadens genomic ... 44 6.9 1
(CP000767) Campylobacter curvus 525.92, complete genome. 44 6.9 1
(CP000678) Methanobrevibacter smithii ATCC 35061, complete g... 44 6.9 1
(BX950229) Methanococcus maripaludis strain S2, complete seq... 44 6.9 1
(AM942759) Proteus mirabilis strain HI4320, complete genome. 44 6.9 1
(AM698041) Vanderwaltozyma polyspora partial mitochondrial g... 36 8.9 3
(AC232030) Solanum tuberosum chromosome 1 clone RH055P15, **... 40 8.9 2
(EF073163) Adelges viridis voucher CNC HEM053419 cytochrome ... 38 9.5 2
(EF073126) Adelges abietis voucher CNC HEM054125 cytochrome ... 38 9.5 2
(EF073125) Adelges abietis voucher CNC HEM054096 cytochrome ... 38 9.5 2
(EF073124) Adelges abietis voucher CNC HEM054069 cytochrome ... 38 9.5 2
(EF073123) Adelges abietis voucher CNC HEM053176 cytochrome ... 38 9.5 2

>(U20432) Dictyostelium discoideum TagB (tagB) gene, complete cds.
Length = 6115

Score = 341 bits (172), Expect = 2e-89
Identities = 175/176 (99%)
Strand = Plus / Plus


Query: 160 tgaaatttcaattttcatcgcccagtaaaatatttctgttttcaagtgtaattttgatat 219
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 170 tgaaatttcaattttcatcgcccagtaaaatatttctgttttcaagtgtaattttgatat 229


Query: 220 taatatttataggaataaaatttgaactacttgaagatacaaatagcaacagaaatgata 279
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 230 taatatttataggaataaaatttgaactacttgaagatacaaatagcaacagaaatgata 289


Query: 280 aatttaataatataattactagatttataaattataatatcgatgactcaatttat 335
|||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 290 aatttaataatataattaatagatttataaattataatatcgatgactcaatttat 345

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 421,816,764
Number of extensions: 27463815
Number of successful extensions: 2367866
Number of sequences better than 10.0: 83
Length of query: 679
Length of database: 101,790,757,118
Length adjustment: 24
Effective length of query: 655
Effective length of database: 99,340,224,878
Effective search space: 65067847295090
Effective search space used: 65067847295090
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7.18
Homology vs Protein
Query= Contig-U01734-1 (Contig-U01734-1Q) /CSM_Contig/Contig-U01734-1Q.Seq.d
(679 letters)

Database: nrp_B
3,236,559 sequences; 1,051,180,864 total letters

Searching..................................................done

Score E
Sequences producing significant alignments: (bits) Value

(P54683) RecName: Full=Prestalk-specific protein tagB; ... 95 2e-18
T18267(T18267) multidrug resistance protein - slime mold (Dictyo... 95 2e-18

>(P54683) RecName: Full=Prestalk-specific protein tagB;
EC=3.4.21.-; Flags: Precursor;
Length = 1906

Score = 95.1 bits (235), Expect = 2e-18
Identities = 56/110 (50%), Positives = 56/110 (50%)
Frame = +3

Query: 165 FQFSSPSXXXXXXXXXXXXXXXXXXXXXXXDTNSNRNDKFNNIITRFINYNIDDSIYKNK 344
FQFSSPS DTNSNRNDKFNNII RFINYNIDDSIYKNK
Sbjct: 3 FQFSSPSKIFLFSSVILILIFIGIKFELLEDTNSNRNDKFNNIINRFINYNIDDSIYKNK 62

Query: 345 XXXXXFSNKIYSNEXXXXXXXXXXXXXXXPSININNXXXX*RGN*SNNTN 494
FSNKIYSNE PSININN N NN N
Sbjct: 63 QQQQQFSNKIYSNEKKILLKNKIIDTTIKPSININNNNN--NNNKLNNNN 110

Lambda K H
0.318 0.134 0.401

Gapped
Lambda K H
0.267 0.0410 0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3236559
Number of Hits to DB: 365,820,851
Number of extensions: 3834012
Number of successful extensions: 7956
Number of sequences better than 10.0: 2
Number of HSP's gapped: 7890
Number of HSP's successfully gapped: 2
Length of query: 226
Length of database: 1,051,180,864
Length adjustment: 124
Effective length of query: 102
Effective length of database: 649,847,548
Effective search space: 66284449896
Effective search space used: 66284449896
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 31 (16.5 bits)

PSORT

psg: 0.71 gvh: 0.44 alm: 0.19 top: 0.07 tms: 0.07 mit: 0.27 mip: 0.00
nuc: 0.00 erl: 0.00 erm: 0.20 pox: 0.00 px2: 0.00 vac: 0.00 rnp: 0.00
act: 0.00 caa: 0.00 yqr: 1.00 tyr: 0.00 leu: 0.00 gpi: 0.00 myr: 0.00
dna: 0.00 rib: 0.00 bac: 0.00 m1a: 0.00 m1b: 0.00 m2 : 1.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 0.00

24.0 %: cytoplasmic
24.0 %: endoplasmic reticulum
20.0 %: mitochondrial
16.0 %: nuclear
12.0 %: Golgi
4.0 %: extracellular, including cell wall

>> prediction for Contig-U01734-1 is cyt

VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 1
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0