CHF238
Library CH
(Link to library)
Clone ID CHF238
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11696-1
Original site URL
Representative seq. ID CHF238P
(Link to Original site)
Representative DNA sequence
>CHF238 (CHF238Q) /CSM/CH/CHF2-B/CHF238Q.Seq.d/
AAAAAAATATCCAATAGTAGTACGAAAATATAACATTACATTATATAATTACAAAAATAA
AATAAATAAAAATTGTAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAANNGNN
AAAAAAAAXXXXXXXXXXATAGTAAAGGTAATTTCTCAGAGGGTATGGAATTTGATAANT
CAATTGGTAACTTTGATCCAAGAAGTNCAGTGATCCAATATGAAAAGAAAGATACACATT
GAACATCTNCATTGTAAAGCCAACCTGTNNTTCAAAGTAAACNTTATGAATGGTAGTATC
AGTATCACNGNATACNATGGTTTACAATTCACACTTCAATATATAC
sequence update 2002.10.25
Translated Amino Acid sequence
KKYPIVVRKYNITLYNYKNKINKNCKTKKKKKKKKKKKXXKK---

---SKGNFSEGMEFDXSIGNFDPRSXVIQYEKKDTH*tsxl*sqpvxqskxyew*yqyhx
ixwftihtsiy


Translated Amino Acid sequence (All Frames)
Frame A:
kkisnsstki*hyii*lqk*nk*kl*nqkkkkkkkkkkxxkk---

---ivkvisqrvwnlixqlvtliqevq*snmkrkihiehlhckanlxfkvnxmngsisit
xyxglqftlqyi

Frame B:
KKYPIVVRKYNITLYNYKNKINKNCKTKKKKKKKKKKKXXKK---

---**r*flrgygi**xnw*l*skkxsdpi*kerytlnixivkptcxsk*tl*mvvsvsx
xtmvynshfniy

Frame C:
kniq**yenitlhyiitkik*ikivkpkkkkkkkkkkxxxkk---

---SKGNFSEGMEFDXSIGNFDPRSXVIQYEKKDTH*tsxl*sqpvxqskxyew*yqyhx
ixwftihtsiy

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

CHF238 (CHF238Q) /CSM/CH/CHF2-B/CHF238Q.Seq.d/ 359 2e-98
CHG420 (CHG420Q) /CSM/CH/CHG4-A/CHG420Q.Seq.d/ 311 4e-84
CHQ589 (CHQ589Q) /CSM/CH/CHQ5-D/CHQ589Q.Seq.d/ 307 6e-83
CHG145 (CHG145Q) /CSM/CH/CHG1-B/CHG145Q.Seq.d/ 305 2e-82
CHG206 (CHG206Q) /CSM/CH/CHG2-A/CHG206Q.Seq.d/ 280 1e-74
CHR508 (CHR508Q) /CSM/CH/CHR5-A/CHR508Q.Seq.d/ 276 2e-73
CHR718 (CHR718Q) /CSM/CH/CHR7-A/CHR718Q.Seq.d/ 270 1e-71
CHN695 (CHN695Q) /CSM/CH/CHN6-D/CHN695Q.Seq.d/ 264 8e-70
CHN240 (CHN240Q) /CSM/CH/CHN2-B/CHN240Q.Seq.d/ 264 8e-70
CHM778 (CHM778Q) /CSM/CH/CHM7-D/CHM778Q.Seq.d/ 264 8e-70

own update 2004.12.25
Homology vs DNA

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

Z36389|Z36389.1 M.musculus mRNA (clone B48) for expressed sequence tag (EST). 32 1.2 2
AC151522|AC151522.1 Medicago truncatula chromosome 2 clone mte1-61m1, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces. 44 1.4 1
AZ678933|AZ678933.1 ENTJU68TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence. 38 1.8 2
AC109069|AC109069.5 Rattus norvegicus clone CH230-70F3, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces. 42 5.7 1
AC008931|AC008931.8 Homo sapiens chromosome 5 clone CTD-2294L1, complete sequence. 42 5.7 1
AC133106|AC133106.3 Homo sapiens chromosome 2 clone RP11-634B17, complete sequence. 42 5.7 1
AE001423|AE001423.1 Plasmodium falciparum 3D7 chromosome 2 section 60 of 73 of the complete sequence. 42 5.7 1
AC146993|AC146993.2 Lytechinus variegatus clone BLV-223C1, WORKING DRAFT SEQUENCE, 4 ordered pieces. 42 5.7 1
AF139827|AF139827.1 Plasmodium falciparum replication factor C subunit 1 (rfc1) gene, complete cds. 42 5.7 1
AY016291|AY016291.1 Homo sapiens type V preprocollagen alpha 2 chain (COL5A2) gene, exons 7 through 14. 42 5.7 1
dna update 2004. 9.27
Homology vs Protein

***** No hits found ******

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: 3039690
Number of Hits to DB: 343,778,660
protein update 2009. 3.31
PSORT

psg: 0.71 gvh: 0.22 alm: 0.62 top: 0.53 tms: 0.00 mit: 0.36 mip: 0.03
nuc: 0.69 erl: 0.00 erm: 0.40 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

76.0 %: nuclear
16.0 %: cytoplasmic
4.0 %: mitochondrial
4.0 %: plasma membrane

>> prediction for CHF238 is nuc

5' end seq. ID CHF238F
5' end seq.
>CHF238F.Seq
AAAAAAATATCCAATAGTAGTACGAAAATATAACATTACATTATATAATTACAAAAATAA
AATAAATAAAAATTGTAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAANNGNN
AAAAAAAANNNNNNNNNN
Length of 5' end seq. 138
3' end seq. ID CHF238Z
3' end seq.
>CHF238Z.Seq
NNNNNNNNNNATAGTAAAGGTAATTTCTCAGAGGGTATGGAATTTGATAANTCAATTGGT
AACTTTGATCCAAGAAGTNCAGTGATCCAATATGAAAAGAAAGATACACATTGAACATCT
NCATTGTAAAGCCAACCTGTNNTTCAAAGTAAACNTTATGAATGGTAGTATCAGTATCAC
NGNATACNATGGTTTACAATTCACACTTCAATATATAC
Length of 3' end seq. 218
Connected seq. ID CHF238P
Connected seq.
>CHF238P.Seq
AAAAAAATATCCAATAGTAGTACGAAAATATAACATTACATTATATAATTACAAAAATAA
AATAAATAAAAATTGTAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAANNGNN
AAAAAAAA----------ATAGTAAAGGTAATTTCTCAGAGGGTATGGAATTTGATAANT
CAATTGGTAACTTTGATCCAAGAAGTNCAGTGATCCAATATGAAAAGAAAGATACACATT
GAACATCTNCATTGTAAAGCCAACCTGTNNTTCAAAGTAAACNTTATGAATGGTAGTATC
AGTATCACNGNATACNATGGTTTACAATTCACACTTCAATATATAC
Length of connected seq. 336
Full length Seq ID -
Full length Seq. -
Length of full length seq. -