Gene T10M13.22/T2H3.12
Putative Identification zinc-finger protein
Position 102356 to 105167, from the initial methionine to the termination codon
Strand +
EST match none
Database match RP8 sequences of rat, mouse, and human

 

Note: This region was annotated using sequence from the overlapping clone T2H3. Although the entire gene model is encoded by T10M13, the sequence of T2H3, which is 100.0% identical to T10M13, is interior to that clone and thus avoids gene modeling problems that can occur at the very end of a sequence.

 

CDS:  The table below lists the coordinates of the T10M13.22 exons and which algorithm selected the particular termini (GF = GeneFinder, GS = GenScan, Gr = GRAIL, M = MZEF, NPG = NetPlantGene - selects splice sites only, not exons). Note: GRAIL, MZEF and NetPlantGene all suggest an exon in the region of exon 1 (see table below), but no initial methionine is described for T10M13.22.

Exon Range 5' 3'
1 102909 - 103229 GF GF, GS, Gr, M, NPG
2 103328 - 103411 GF, M, NPG GF, GS, M, NPG
3 103495 - 103628 GF, Gr, M, NPG GF, Gr, M, NPG
4 103728 - 103825 GF, GS, M, NPG GF, GS, M, NPG
5 103912 - 104000 GF, GS, Gr, NPG GF, GS, Gr, NPG
6 104094 - 104208 GF, GS, Gr, M, NPG GF, GS, M, NPG
7 104285 - 104439 GF, GS, M, NPG GF, GS, Gr, M, NPG
8 104519 - 104589 GF, GS, M, NPG GF, M, NPG
9 104676 - 104790 GF, M, NPG GF, M, NPG
10 105009 - 105167 GF, GS, Gr, NPG GF, GS, Gr

Alternate exons not used in building the gene model. GenScan predicts an initial exon from 102506 to 102532; and internal exons from 102550 to 102698, from 102959 to 103229, from 103293 to 103411, and from 104519 to 104692. GRAIL predicts internal exons from 102364 to 102426, from 102959 to 103229, from 104094 to 104183 and from 104259 to 104439. MZEF predicts internal exons from 102356 to 102426, from 102647 to 102703, and from 102959 to 103229. NetPlantGene predicts several putative splice sites in this region. Those not used include splice donors at 102392 (confidence score = 1.00), at 102426 and at 102703 (0.93) and splice acceptors at 102959 and at 105471 (0.93).

CDS of T10M13.22

ATGAAACAGAGTAAAACCCTAGAATTCAATTCCTTTGCTCTGTTATGCAGCAGTCTTCAT
TTCATCAAATTCAACACAGAAGATTCGATGAGTAGCTTCAACGGAGACTCCATGGATGAT
TTCAAAGGCCTCCGAATAACTCAGCTTGATGATGATGACGATGATGAAACTGCGGTGGAA
CCTATAAATATGGATGAATTTGATGATGATGATGAGGAAGATGATGAAGATTATGAACCT
GTGATGTTAGGTTTCGTTGAGAGTCCTAAATTCGCATGGTCAAATCTTCGTCAACTGTTC
CCTAATTTAGCTGGTGGTGTTCCGGCATGGTTGGATCCAGTTAATTTACCATCAGGGAAG
TCAATTCTATGTGATCTATGTGAAGAACCTATGCAATTTGTACTTCAACTTTATGCTCCT
TTAACAGACAAGGAATCAGCTTTTCATCGGACATTGTTTCTCTTCATGTGTCCATCTATG
TCTTGTCTCCTTCGTGATCAACATGAACAATGGAAACGTGCCCCAGAGAAGGCTATGCGG
AGTACGAAGGTTTTCCGTTGCCAATTGCCTCGAGCTAATCCTTTTTACTCGAGTGAGGCT
CCAAAGCACGATGGAACAGACAAGCCATTGGGTCATGGAGCTCCGCTTTGCACTTGGTGT
GGAACATGGAAAGGAGATAAACTATGTAGCGGCTGCAAAAATGCTCGATACTGTTCACCG
AAACACCAGGCCCTGCATTGGCGCTTGGGTCATAAAACCGAATGCCAACAGCTTCGAACG
GTTAGCGAAACATCTGACTCAGGCCCTGTCAATAATGGGGTTGCTCCAACTGAAAAGCAG
AAAGTTGCGAGTAAGAGTTTATGGAAAGAATTTGTATTGATCAATGAGGATGAAAGTGAG
TATGATACTGAGATGTCAGGAGATGATGAAGTAGCTAAACCTTTGGTCTCAAAGAGAGAA
GTTGACGACCAAATGAAATCGCTAATGAACGATTTTGAGGGAGATGCTGATAAAAAGAAT
TGGGTTAATTTCCAGCAACGCGTAGACAAAGCCCCTGAACAAGTTCTGAGATATTCCCGG
AGCTCTGGTGCTAAACCCCTTTGGCCAATAGCAAGCGGACGAGTCTCTAAATCTGAGCTT
CCCAGTTGCAAATCTTGTGGTGGTCCTCGTTGTTTTGAATTTCAGGTGATGCCGCAGCTA
CTGTTCTTCTTCGGTGGGAAGAACGAGAGGGAATCTCTCGATTGGGCAACAATCGTGGTG
TACACTTGTGAGAACTCGTGTGACTCGAGCTTAAGTTACAAGGAAGAGTTTGTCTGGGTT
CAACTATACAGTCAGACAACTTAG

 

Protein sequence

MKQSKTLEFNSFALLCSLHFIKFNTEDSMSSFNGDSMDDFKGLRITQLDDDDDDETAVEP
INMDEFDDDDEEDDEDYEPVMLGFVESPKFAWSNLRQLFPNLAGGVPAWLDPVNLPSGKS
ILCDLCEEPMQFVLQLYAPLTDKESAFHRTLFLFMCPSMSCLLRDQHEQWKRAPEKAMRS
TKVFRCQLPRANPFYSSEAPKHDGTDKPLGHGAPLCTWCGTWKGDKLCSGCKNARYCSPK
HQALHWRLGHKTECQQLRTVSETSDSGPVNNGVAPTEKQKVASKSLWKEFVLINEDESEY
DTEMSGDDEVAKPLVSKREVDDQMKSLMNDFEGDADKKNWVNFQQRVDKAPEQVLRYSRS
SGAKPLWPIASGRVSKSELPSCKSCGGPRCFEFQVMPQLLFFFGGKNERESLDWATIVVY
TCENSCDSSLSYKEEFVWVQLYSQTT*

 

Alignment of RP8 zinc-finger proteins:

The RP8 sequences from rat (M80601) and mouse (U10903) are zinc-finger proteins associated with programmed cell death; the human RP8 homolog (also called Programmed Cell Death 2, S78085) was cloned from fetal lung; and T10M13.22 was discovered by genomic sequencing of A. thaliana. Owens GR, et al. (1991, Mol. Cell. Biol. 11:4177-4188) report that mRNA levels of the Rat-RP8 gene accumulate after gamma radiation.

            1                                                         60
   Rat-RP8  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 Mouse-RP8  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
HumanPDCD2  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 T10M13.22  MKQSKTLEFNSFALLCSLHFIKFNTEDSMSSFNGDSMDDFKGLRITQLDDDDDDETAVEP

            61                                                       120
   Rat-RP8  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 
 Mouse-RP8  ~~~~~~~~~~~MAAAAPGPVELGFAEEAP.AWRLRSEQFPSKVGGRPAWLGLAELPGPGA
HumanPDCD2  ~~~~~~~~~~~MAAAGARPVELGFAESAP.AWRLRSEQFPSKVGGRPAWLGAAGLPGPQA
 T10M13.22  INMDEFDDDDEEDDEDYEPVMLGFVESPKFAWSNLRQLFPNLAGGVPAWLDPVNLPSGKS

            121                                                      180
   Rat-RP8  ~~~~~~~~PLAFLLQVYAPLPGRDDAFHRSLFLFCCREPLC................CAG
 Mouse-RP8  LACARCGRPLAFLLQVYAPLPGRDDAFHRSLFLFCCREPLC................CAG
HumanPDCD2  LACELCGRPLSFLLQVYAPLPGRPDAFHRCIFLFCCREQPC................CAG
 T10M13.22  ILCDLCEEPMQFVLQLYAPLTDKESAFHRTLFLFMCPSMSCLLRDQHEQWKRAPEKAMRS

            181                                                      240
   Rat-RP8  LRVFRNQLPRKNAFYSYEPPSETGASDT.ECVCLQLKSGAHLCRVCGC.LAPMTCSRCKQ
 Mouse-RP8  LRVFRNQLPRNNAFYSYEPPSETEALGT.ECVCLQLKSGAHLCRVCGC.LAPMTCSRCKQ
HumanPDCD2  LRVFRNQLPRKNDFYSYEPPSENPPPETGESVCLQLKSGAHLCRVCGC.LGPKTCSRCHK
 T10M13.22  TKVFRCQLPRANPFYSSEAPKHDGTDK.......PLGHGAPLCTWCGTWKGDKLCSGCKN

            241                                                      300
   Rat-RP8  AHYCSKEHQTLDWQLGHKQACTQSDHLDHMV...PDHNLLFP.............EFEIV
 Mouse-RP8  AHYCSKEHQTLDWRLGHKQACTQSDKIDHMV...PDHNFLFP.............EFEIV
HumanPDCD2  AYYCSKEHQTLDWRLGHKQACAQPDHLDHII...PDHNFLFP.............EFEIV
 T10M13.22  ARYCSPKHQALHWRLGHKTECQQLRTVSETSDSGPVNNGVAPTEKQKVASKSLWKEFVLI

            301                                                      360
   Rat-RP8  TETEDEIGPEVVEMEDYSEVIGSMEGVPEEELDSMAKHESKED.HIFQKFKSKIALEPEQ
 Mouse-RP8  TETEDEILPEVVEMEDYSEVTGSMGGIPEEELDSMAKHESKED.HIFQKFKSKIPLEPEQ
HumanPDCD2  IETEDEIMPEVVEKEDYSEIIGSMGEALEEGLDSMAKHESRED.KIFQKFKTQIALEPEQ
 T10M13.22  NEDESEYDTEMSGDDEVAKPLVSKREVDDQMKSLMNDFEGDADKKNWVNFQQRVDKAPEQ

            361                                                      420
   Rat-RP8  ILRYGR..GIKPIWISGENIPQEKDIPDC.SCGVKRIFEFQVMPQLLNHLKADRLGTSVD
 Mouse-RP8  ILRYGR..GIKPIWISGENIPQEKDIPDC.PCGAKRIFEFQVMPQLLNHLKADRLGRSID
HumanPDCD2  ILRYGR..GIAPIWISGENIPQEKDIPDC.PCGAKRILEFQVMPQLLNYLKADRLGKSID
 T10M13.22  VLRYSRSSGAKPLWPIASGRVSKSELPSCKSCGGPRCFEFQVMPQLLFFFGGKNERESLD

            421                           453
   Rat-RP8  WGILAVFTCAESCSLGIGFTEEFVWKQDVTETP*
 Mouse-RP8  WGVLAVFTCAESCSLGSGYTEEFVWKQDVTDTP*
HumanPDCD2  WGILAAFTCAESCSLGTGYTEEFVWKQDVTDTP*
 T10M13.22  WATIVVYTCENSCDSSLSYKEEFVWVQLYSQTT*

 

written 31 Jul 97
updated 4 Aug 98
updated 16 Sep 98
Larry Parnell