Gene T13L16.8
Putative Identification zinc-finger protein
Position 47666 - 50921, from the initial methionine to the termination codon
Strand +
EST match none
Database match murine Bop, alternately spliced product encoding zinc finger-like motifs

 

CDS:  The table below lists the coordinates of the exons for T13L16.8 and which exon predicting algorithms selected the given termini (GS = GenScan, Gr = Grail, M = MZEF, NPG = NetPlantGene - selects splice sites only, not exons). Rice EST C72823 suggests three splice sites and these are designated by est. There are two possible choices for exon 12. The gene model selecting exon 12a aligns better to murine Bop than does that utilizing exon 12b; both exons cannot be incorporated into a single open reading frame.

Exon

Range

5'

3'

1 47666 - 47765 GS GS
2 47844- 47989 est, GS, M est, GS, M
3 48078 - 48212 est, GS, Gr, M, NPG GS, Gr, M, NPG
4 48550 - 48624 Gr, NPG GS, NPG
5 48721 - 48809 GS, Gr, M, NPG GS, Gr, M, NPG
6 48874 - 48955 GS, M, NPG GS, M, NPG
7 49045 - 49149 GS, NPG GS, NPG
8 49241 - 49331 GS, M, NPG GS, M, NPG
9 49413 - 49532 GS, Gr, M, NPG GS, Gr, M, NPG
10 49651 - 49757 GS, Gr, M, NPG GS, Gr, M
11 49852 - 49921 GS, NPG GS, Gr, NPG
12a 50253 - 50316 GS, M, NPG GS, M, NPG
12b 50532 - 50643 Gr, M, NPG Gr, M, NPG
13 50762 - 50921 GS, Gr, NPG Gr

Complete CDS of T13L16.8

ATGGCGGATTTGCAGAGATTTCTGCAAGATCGCTGCTTAGGCGTTTCGAATCTCCCACAG
AAAGGCCGCTCTCTATTCACTGCCAGAGATTTTCGTCCAGGAGAAGTGATTCTAAGCCAA
AAGCCATATATATGTGTTCCGAATAATACATCCTCGGAATCAAGATGTGACGGATGTTTC
AAGACCAATAACCTTAAGAAATGTTCTGCTTGTCAAGTGGTTTGGTACTGTGGGAGCTCT
TGCCAGAAGTCAGAGTGGAAGTTACATCGCGATGAATGCAAAGCTCTCACTAGACTTGAG
AAGGAGAAACGGAAGTTTGTTACTCCTACAATACGTCTGATGGTTAGACTTTACATCAAG
AGGAATTTGCAAAATGAAAAGATGGCTAATCTTGTGAACTTGATTCTTCAATTTCCTAGT
GTTGACCTAAGAGAGATCGCCGAGAACTTTTCAAAGTTCTCATGCAATGCTCATAGCATT
TGTGATAGCGAATTGAGACCTCAAGGGATTGGATTGTTTCCATTGGTTTCCATCATTAAT
CACAGCTGCTCTCCCAATGCGGTTTTAGTGTTTGAGGAGCAGATGGCTGTTGTTCGGGCG
ATGGATAACATATCAAAGGATTCAGAGATAACTATCAGTTATATTGAAACCGCTGGAAGC
ACTCTGACTCGGCAGAAGTCTCTGAAAGAACAATACCTCTTCCACTGTCAGTGTGCCCGT
TGCAGTAACTTTGGAAAACCTCATGATATTGAAGAAAGTGCAATATTGGAAGGCTATCGG
TGTGCCAATGAGAAATGCACCGGTTTCTTACTCCGTGATCCTGAAGAAAAAGGCTTCGTT
TGCCAGAAATGCTTGCTTCTTAGGAGCAAGGAAGAGGTTAAAAAGTTAGCAAGTGATCTC
AAAACAGTTTCAGAGAAGGCTCCTACATCTCCTTCCGCAGAAGATAAACAAGCCGCTATT
GAACTATATAAGACAATTGAGAAACTACAAGTTAAGCTTTACCATTCTTTCTCCATCCCT
TTAATGAGAACCCGTGAAAAACTTCTCAAGATGCTAATGGACGTAGAAATCTGGAGAGAA
GCTTTGAATTACTGCAGACTAATAGTCCCTGTTTACCAAAGAGTATATCCGGCAACCCAT
CCTTTGATTGGACTGCAGTTCTATACCCAAGGAAAACTCGAATGGTTGCTGGGGGAAACC
AAAGAGGCGGTGAGTTCATTGATTAAGGCATTTGACATTCTGCGGATCAGCCATGGAATA
AGCACACCTTTCATGAAAGAGCTCTCAGCAAAGTTGGAGGAAGCTCGTGCAGAAGCTTCT
TATAAGCAGCTTGCATTGCATTGA

 

Protein sequence of T13L16.8

MADLQRFLQDRCLGVSNLPQKGRSLFTARDFRPGEVILSQKPYICVPNNTSSESRCDGCF
KTNNLKKCSACQVVWYCGSSCQKSEWKLHRDECKALTRLEKEKRKFVTPTIRLMVRLYIK
RNLQNEKMANLVNLILQFPSVDLREIAENFSKFSCNAHSICDSELRPQGIGLFPLVSIIN
HSCSPNAVLVFEEQMAVVRAMDNISKDSEITISYIETAGSTLTRQKSLKEQYLFHCQCAR
CSNFGKPHDIEESAILEGYRCANEKCTGFLLRDPEEKGFVCQKCLLLRSKEEVKKLASDL
KTVSEKAPTSPSAEDKQAAIELYKTIEKLQVKLYHSFSIPLMRTREKLLKMLMDVEIWRE
ALNYCRLIVPVYQRVYPATHPLIGLQFYTQGKLEWLLGETKEAVSSLIKAFDILRISHGI
STPFMKELSAKLEEARAEASYKQLALH*

 

BLAST output showing match to murine Bop. A putative zinc-finger motif identified with ProDom is highlighted.

 gb|U76374|MMU76374 Mus musculus skm-BOP2 (Bop) mRNA, complete cds
            Length = 3458
            
 Score =  155 bits (388), Expect = 1e-36

Query: 21   KGRSLFTARDFRPGEVILSQKPYICVPNNTSSESRCDGCFKTNN-LKKCSACQVVWYCGS 79
            KGR L   ++F   +VI +++ Y  V  ++     C  CFK    L +C  C+   YC  
Sbjct: 1500 KGRGLKATKEFWAADVIFAERAYSAVVFDSLINFVCHTCFKRQEKLHRCGQCKFAHYCDR 1679

Query: 80   SCQKSEWKLHRDECKALTRLEKEKRKFVTPTIRLMVR------------LYIKRNLQN-- 125
            +CQK  W  H++EC A+ +  K   + +    R+M R            +    +LQN  
Sbjct: 1680 TCQKDAWLNHKNECAAIKKYGKVPNENIRLAARIMWRVEREGTGLTEGCMVSVDDLQNHV 1859

Query: 126  -----EKMANL---VNLILQF-----PSVDLREIAENFSKFSCNAHSICDSE-LRPQGIG 171
                 E+   L   V+  LQ+         ++ I+  F   +CN  ++ D   L+  G+G
Sbjct: 1860 EHFGEEEQKELRVDVDTFLQYWPPQSQQFSMQYISHIFGVINCNGFTLSDQRGLQAVGVG 2039

Query: 172  LFPLVSIINHSCSPNAVLVFEEQMAVVRAMDNISKDSEITISYIETAGSTLTRQKSLKEQ 231
            +FP + ++NH C PN  ++F      +RA+  IS+  E+T+SYI+    +  R++ LK+Q
Sbjct: 2040 IFPNLGLVNHDCWPNCTVIFNNGKIELRALGKISEGEELTVSYIDFLHLSEERRRQLKKQ 2219

Query: 232  YLFHCQCARCSNFGKPHDIEESAILEGYRCANEKCTGFLLRDPEEKGFVCQKCLLLRSKE 291
            Y F C C  C   G   D+        +  A E        DP+             S+E
Sbjct: 2220 YYFDCSCEHCQK-GLKDDL--------FLAAKE--------DPKP------------SQE 2312

Query: 292  EVKKLASDLKTVSEKAPTSPSAEDKQAAIELYKTIEKLQVKLYHSFSIPLMRTREKLLKM 351
             VK++    K   EK   + S       ++L +   + Q  ++   ++ ++R      ++
Sbjct: 2313 VVKEMIQFSKDTLEKIDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEV 2492

Query: 352  LMDVEIWREALNYCRLIVPVYQRVYPATHPLIGLQFYTQGKLEWLLGETKEAVSSLIKAF 411
            L  ++ + EA +Y R +V  Y ++Y   +  +G+     G   W  G  +     + KA+
Sbjct: 2493 LSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAY 2672

Query: 412  DILRISHGISTPFMKELSAKLEEARAE 438
             IL ++HG S P  K+L A   +   E
Sbjct: 2673 AILLVTHGPSHPITKDLEAMRMQTEME 2753

 

Sequence of T13L16.8 protein from incorporation of alternate exon 12b
   The peptide encoded by this alternate exon is shown in bold.

MADLQRFLQDRCLGVSNLPQKGRSLFTARDFRPGEVILSQKPYICVPNNTSSESRCDGCF
KTNNLKKCSACQVVWYCGSSCQKSEWKLHRDECKALTRLEKEKRKFVTPTIRLMVRLYIK
RNLQNEKMANLVNLILQFPSVDLREIAENFSKFSCNAHSICDSELRPQGIGLFPLVSIIN
HSCSPNAVLVFEEQMAVVRAMDNISKDSEITISYIETAGSTLTRQKSLKEQYLFHCQCAR
CSNFGKPHDIEESAILEGYRCANEKCTGFLLRDPEEKGFVCQKCLLLRSKEEVKKLASDL
KTVSEKAPTSPSAEDKQAAIELYKTIEKLQVKLYHSFSIPLMRTREKLLKMLMDVEIWRE
ALNYCRLIVPVYQIREVGTRRDWLVLGGTWLISLQDIPKLESLWKETFVYLLLGETKEAV
SSLIKAFDILRISHGISTPFMKELSAKLEEARAEASYKQLALH*

 

written 18 Dec 97
Larry Parnell