SHL853
Library SH
(Link to library)
Clone ID SHL853
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11096-1
Original site URL
Representative seq. ID SHL853P
(Link to Original site)
Representative DNA sequence
>SHL853 (SHL853Q) /CSM/SH/SHL8-C/SHL853Q.Seq.d/
TAATAATATGATGGATGGTGGTGTTACACCAGTATATAATAGTAATAATAACAACAACAG
CAATAGCAATGGTGGTAGTAATAATAATAAAAATATATTAATGCAAACACCAGATCCATA
TCAAGCACAATTACAAAAAGAGATTGACGAAAGAAATAGACCATGGACAGATGAGGAATT
GGATAATATATTACCATCGGAAGGATACGAAATTTTACAACCACCAGCAAATTAXXXXXX
XXXXTCGTCGTGCCGCTGTAAATACATTTGGTTACATTGCAAAAGCTATTGGTCNTCAAG
AGGTATTGGCAACCCTATTAAACAATTTGAAAGTTCAAGATCGTCAAAACAGAGTTTGTA
CAACCGTTGCCATTGCCATTGTTGCGGAAACTTGTGCACCTTATACCGTTTTACCAGGTC
TAATCAATGAATATCGTATTCCAGAGCTGAATGTTCAAAATGGTGTTTTGAAATCTTTAT
CTTTCCTCTTTGAATATATTGGCGAAATGGGTAAAGACTATATTTACGCCGTAACTACCC
TACTCGAAGATGCACTCATGGATAGAGATGCTGTACATCGTCAAACCGCTTGCTCTGCAA
TTAAACATATTTCATTGGGTGTAATGGGTTTAGGTTGTGAAGATTCACTCACTCATTTAC
TCAATTACGTTTGGCCAAATGTTTTCGAAACTTCTCCACATGTTATCAACGCTTTCTTAG
AGGCCGTTGAAGGTTTACGTTTTGCTTTAGGTCCAAATACTATTCTTCAATATACCCTTC
AAGGTTTATTCCATCCATCTCGTAAAGTTAGAAATATTTATTGGAAACTTTATAATATGC
TTTATATTAGTTCTCAAGATGCTTTAACACCATGTTATCCAAGAACNTTANANAAAATGA
TAATAAA
sequence update 2002.10.25
Translated Amino Acid sequence
NNMMDGGVTPVYNSNNNNNSNSNGGSNNNKNILMQTPDPYQAQLQKEIDERNRPWTDEEL
DNILPSEGYEILQPPAN---

---RRAAVNTFGYIAKAIGXQEVLATLLNNLKVQDRQNRVCTTVAIAIVAETCAPYTVLP
GLINEYRIPELNVQNGVLKSLSFLFEYIGEMGKDYIYAVTTLLEDALMDRDAVHRQTACS
AIKHISLGVMGLGCEDSLTHLLNYVWPNVFETSPHVINAFLEAVEGLRFALGPNTILQYT
LQGLFHPSRKVRNIYWKLYNMLYISSQDALTPCYPRTLXKMII


Translated Amino Acid sequence (All Frames)
Frame A:
**ydgwwcytsi*****qqqq*qww*****kyinantrsisstitkrd*rkk*tmdr*gi
g*yitigrirnftttskl---

---sscrckyiwlhcksywssrgignpikqfessrsskqslynrchchccgnlctlyrft
rsnq*isysraecskwcfeififpl*iywrng*rlylrrnyptrrcthg*rcctssnrll
cn*tyfigcngfrl*rfthsftqlrlakcfrnfstcyqrflrgr*rftfcfrskyyssiy
psrfipsis*s*kylletl*yaly*fsrcfntmlsknxxxndnk

Frame B:
NNMMDGGVTPVYNSNNNNNSNSNGGSNNNKNILMQTPDPYQAQLQKEIDERNRPWTDEEL
DNILPSEGYEILQPPAN---

---RRAAVNTFGYIAKAIGXQEVLATLLNNLKVQDRQNRVCTTVAIAIVAETCAPYTVLP
GLINEYRIPELNVQNGVLKSLSFLFEYIGEMGKDYIYAVTTLLEDALMDRDAVHRQTACS
AIKHISLGVMGLGCEDSLTHLLNYVWPNVFETSPHVINAFLEAVEGLRFALGPNTILQYT
LQGLFHPSRKVRNIYWKLYNMLYISSQDALTPCYPRTLXKMII

Frame C:
ii*wmvvlhqyiiviitttaiamvvviiikiy*ckhqihikhnykkrltkeidhgqmrnw
iiyyhrkdtkfynhqqi---

---vvpl*ihlvtlqkllvxkrywqpy*ti*kfkivktefvqplplpllrklvhlipfyq
v*smnivfqs*mfkmvf*nlylsslnilakwvktiftp*lpyskmhswiemlyivkplal
qlnifhwv*wv*vvkihsliysitfgqmfskllhmlstls*rplkvyvll*vqilffnip
fkvysihlvkleifignfiicfilvlkml*hhviqexxxk***

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

SHL853 (SHL853Q) /CSM/SH/SHL8-C/SHL853Q.Seq.d/ 1526 0.0
AHA193 (AHA193Q) /CSM/AH/AHA1-D/AHA193Q.Seq.d/ 1277 0.0
VHA852 (VHA852Q) /CSM/VH/VHA8-C/VHA852Q.Seq.d/ 1251 0.0
CHD773 (CHD773Q) /CSM/CH/CHD7-D/CHD773Q.Seq.d/ 1168 0.0
SHB332 (SHB332Q) /CSM/SH/SHB3-B/SHB332Q.Seq.d/ 1130 0.0
VHP552 (VHP552Q) /CSM/VH/VHP5-C/VHP552Q.Seq.d/ 1128 0.0
SHA183 (SHA183Q) /CSM/SH/SHA1-D/SHA183Q.Seq.d/ 1027 0.0
VHM551 (VHM551Q) /CSM/VH/VHM5-C/VHM551Q.Seq.d/ 1007 0.0
AHD177 (AHD177Q) /CSM/AH/AHD1-D/AHD177Q.Seq.d/ 967 0.0
AHD733 (AHD733Q) /CSM/AH/AHD7-B/AHD733Q.Seq.d/ 954 0.0

own update 2004.12.25
Homology vs DNA

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

AC117082|AC117082.2 Dictyostelium discoideum chromosome 2 map complement(6807709-6776860) strain AX4, complete sequence. 1261 0.0 2
AU312337|AU312337.1 Elaphe quadrivirgata cDNA, clone:Eq_aB_021_F03. 101 5e-41 3
DV664609|DV664609.1 CGN-1811 Pericarp Coffea canephora cDNA clone cccp22c1 5', mRNA sequence. 107 1e-30 4
EC289560|EC289560.1 BRAINF089623B7 POSSUM_01-POSSUM-C-BRAIN-2KB Trichosurus vulpecula cDNA clone 1061024822769, mRNA sequence. 88 5e-28 3
EC286335|EC286335.1 BRAINF089834J4 POSSUM_01-POSSUM-C-BRAIN-2KB Trichosurus vulpecula cDNA clone 1061024733099, mRNA sequence. 88 5e-28 3
EC364387|EC364387.1 IMMUNEF093542N20 POSSUM_01-C-POSSUM-IMMUNE-2KB Trichosurus vulpecula cDNA clone 1061024549274, mRNA sequence. 88 6e-28 3
DY031641|DY031641.1 zfi02-5ms1-e05 Zfi02 Zamia fischeri cDNA clone zfi02-5ms1-e05 5', mRNA sequence. 98 1e-27 3
DY611266|DY611266.1 IMMUNEF045822K24 POSSUM_01-C-POSSUM-IMMUNE-2KB Trichosurus vulpecula cDNA clone 1061021063254, mRNA sequence. 84 9e-27 3
BJ615493|BJ615493.1 Xenopus laevis cDNA clone:XL172e10, 5' end. 70 4e-25 4
BJ617934|BJ617934.1 Xenopus laevis cDNA clone:XL182p08, 5' end. 70 6e-25 4
dna update 2007. 3.10
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

AP008208_305(AP008208|pid:none) Oryza sativa (japonica cultivar-... 365 1e-99
AE014134_132(AE014134|pid:none) Drosophila melanogaster chromoso... 363 4e-99
CP000583_21(CP000583|pid:none) Ostreococcus lucimarinus CCE9901 ... 356 7e-97
AK221391_1(AK221391|pid:none) Arabidopsis thaliana mRNA for nucl... 356 7e-97
(O75533) RecName: Full=Splicing factor 3B subunit 1; AltName: Fu... 355 1e-96
(O57683) RecName: Full=Splicing factor 3B subunit 1; AltName: Fu... 354 2e-96
CP001324_246(CP001324|pid:none) Micromonas sp. RCC299 chromosome... 353 3e-96
AK048521_1(AK048521|pid:none) Mus musculus 16 days embryo head c... 327 4e-88
AM270010_46(AM270010|pid:none) Aspergillus niger contig An02c015... 322 1e-86
AP007159_186(AP007159|pid:none) Aspergillus oryzae RIB40 genomic... 322 1e-86
protein update 2009. 5.31
PSORT

psg: 0.75 gvh: 0.35 alm: 0.36 top: 0.53 tms: 0.00 mit: 0.23 mip: 0.00
nuc: 0.04 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: 0.00 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 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 1.00

52.0 %: cytoplasmic
28.0 %: nuclear
16.0 %: cytoskeletal
4.0 %: mitochondrial

>> prediction for SHL853 is cyt

5' end seq. ID SHL853F
5' end seq.
>SHL853F.Seq
TAATAATATGATGGATGGTGGTGTTACACCAGTATATAATAGTAATAATAACAACAACAG
CAATAGCAATGGTGGTAGTAATAATAATAAAAATATATTAATGCAAACACCAGATCCATA
TCAAGCACAATTACAAAAAGAGATTGACGAAAGAAATAGACCATGGACAGATGAGGAATT
GGATAATATATTACCATCGGAAGGATACGAAATTTTACAACCACCAGCAAATTANNNNNN
NNNN
Length of 5' end seq. 244
3' end seq. ID SHL853Z
3' end seq.
>SHL853Z.Seq
NNNNNNNNNNTCGTCGTGCCGCTGTAAATACATTTGGTTACATTGCAAAAGCTATTGGTC
NTCAAGAGGTATTGGCAACCCTATTAAACAATTTGAAAGTTCAAGATCGTCAAAACAGAG
TTTGTACAACCGTTGCCATTGCCATTGTTGCGGAAACTTGTGCACCTTATACCGTTTTAC
CAGGTCTAATCAATGAATATCGTATTCCAGAGCTGAATGTTCAAAATGGTGTTTTGAAAT
CTTTATCTTTCCTCTTTGAATATATTGGCGAAATGGGTAAAGACTATATTTACGCCGTAA
CTACCCTACTCGAAGATGCACTCATGGATAGAGATGCTGTACATCGTCAAACCGCTTGCT
CTGCAATTAAACATATTTCATTGGGTGTAATGGGTTTAGGTTGTGAAGATTCACTCACTC
ATTTACTCAATTACGTTTGGCCAAATGTTTTCGAAACTTCTCCACATGTTATCAACGCTT
TCTTAGAGGCCGTTGAAGGTTTACGTTTTGCTTTAGGTCCAAATACTATTCTTCAATATA
CCCTTCAAGGTTTATTCCATCCATCTCGTAAAGTTAGAAATATTTATTGGAAACTTTATA
ATATGCTTTATATTAGTTCTCAAGATGCTTTAACACCATGTTATCCAAGAACNTTANANA
AAATGATAATAAA
Length of 3' end seq. 673
Connected seq. ID SHL853P
Connected seq.
>SHL853P.Seq
TAATAATATGATGGATGGTGGTGTTACACCAGTATATAATAGTAATAATAACAACAACAG
CAATAGCAATGGTGGTAGTAATAATAATAAAAATATATTAATGCAAACACCAGATCCATA
TCAAGCACAATTACAAAAAGAGATTGACGAAAGAAATAGACCATGGACAGATGAGGAATT
GGATAATATATTACCATCGGAAGGATACGAAATTTTACAACCACCAGCAAATTA------
----TCGTCGTGCCGCTGTAAATACATTTGGTTACATTGCAAAAGCTATTGGTCNTCAAG
AGGTATTGGCAACCCTATTAAACAATTTGAAAGTTCAAGATCGTCAAAACAGAGTTTGTA
CAACCGTTGCCATTGCCATTGTTGCGGAAACTTGTGCACCTTATACCGTTTTACCAGGTC
TAATCAATGAATATCGTATTCCAGAGCTGAATGTTCAAAATGGTGTTTTGAAATCTTTAT
CTTTCCTCTTTGAATATATTGGCGAAATGGGTAAAGACTATATTTACGCCGTAACTACCC
TACTCGAAGATGCACTCATGGATAGAGATGCTGTACATCGTCAAACCGCTTGCTCTGCAA
TTAAACATATTTCATTGGGTGTAATGGGTTTAGGTTGTGAAGATTCACTCACTCATTTAC
TCAATTACGTTTGGCCAAATGTTTTCGAAACTTCTCCACATGTTATCAACGCTTTCTTAG
AGGCCGTTGAAGGTTTACGTTTTGCTTTAGGTCCAAATACTATTCTTCAATATACCCTTC
AAGGTTTATTCCATCCATCTCGTAAAGTTAGAAATATTTATTGGAAACTTTATAATATGC
TTTATATTAGTTCTCAAGATGCTTTAACACCATGTTATCCAAGAACNTTANANAAAATGA
TAATAAA
Length of connected seq. 897
Full length Seq ID -
Full length Seq. -
Length of full length seq. -