Gene T10M13.19
Putative Identification syntaxin-like, AtTLG2-like
Position 96364 to 98457, from the initial methionine to the termination codon
Strand -
EST match none
Database match A. thaliana syntaxin-like protein AtTLG2 (AF067789)

 

CDS:  The table below lists the coordinates for each T10M13.19 exon and which gene prediction program predicted the termini (GS = GenScan, Gr = GRAIL, M = MZEF, NPG = NetPlantGene - selects splice sites only, not exons). Splice sites delineated by similarity to cDNA AtTLG2 are designated by cDNA.

Exon Range 3' 5'
1 98267 - 98457 cDNA, GS, NPG cDNA, GS
2 97820 - 98096 cDNA, GS, Gr, M, NPG cDNA, GS, M, NPG
3 97417 - 97506 cDNA, GS, Gr, M, NPG cDNA, GS, Gr
4 97228 - 97302 GS, Gr, M, NPG cDNA, Gr
5 96903 - 96980 cDNA, GS, Gr, M, NPG GS, Gr, M, NPG
6 96753 - 96818 cDNA, Gr, NPG cDNA, Gr
7 96565 - 96645 cDNA, M, NPG cDNA, GS, Gr, M, NPG
8 96364 - 96471 cDNA cDNA, M, NPG

Alternate exons not used in building the gene model. GenScan predicts an internal exon from 97228 to 97308 and a final exon from 96559 to 96645. GRAIL predicts an initial exon from 97820 to 98008 and a final exon from 96559 to 96645. MZEF selects internal exons from 97417 to 97490, from 97228 to 97308 and from 96442 to 96471. NetPlantGene predicts many putative splice sites throughtout this region. Notable splice sites include splice acceptors at 97588 (confidence score = 0.90) and at 97308 (0.90).

Complete CDS of T10M13.19

ATGGCGACGAGGAATCGAACGACGGTGTACCGGAAACACAGGGATGCGTGTAAGAGCGCG
CGTGCTCCATTATCTTTATCGGCGTCTGATTCGTTCGGTGGTCCGGTGATCGAAATGGTT
AGCGGTTCATTTTCCCGGTCCAATCACTCCTCTTATGCTCCTTTGAATTCCTATGATCCT
GGTCCATCAAGTAGTGATGCCTTCACAATTGGTATGCCACCAGCTTGGGTTGATGATTCT
GAGGAGATAACTTTTAATATACAAAAGGTGCGAGACAAAATGAATGAACTAGCAAAGGCA
CATTCAAAGGCTCTTATGCCTACATTTGGAGATAACAAAGGGATTCATCGTGAAGTCGAG
ATGCTCACTCATGAGATCACAGATTTGTTGAGGAAGTCAGAAAAGAGATTGCAGATGTTA
TCTACTAGAGGGCCTTCTGAAGAATCAAATCTCAGGAAAAATGTGCAGCGTTCTCTTGCA
ACAGATCTTCAGAACCTTTCCATGGAGCTCCGCAGAAAACAGTCTACTTACTTAAAACGT
CTGCAGCAGCAGAAAGAGGATGAAGTAGATTTAGAGTTTAATGTGAATGGAAAGATGTCG
AGACTGGATGAAGAGGATGAACTTGGTGGGATGGGTTTCGATGAACACCAGACAATCAAG
TTGAAGGAAGGGCAACATGTCTCAGCGGAAAGGGAACGAGAGATACAACAGGTTCTGGGT
TCCGTGAATGACCTTGCACAGATAATGAAAGACTTATCAGCCCTTGTGATTGACCAGGGC
ACGATTGTTGATCGGATAGACTACAATGTCCAAAACGTTTCTACATCGGTCGAGGAAGGC
TATAAACAACTACAAAAGGCGGAGAGAACACAAAGAGAAGGAGCAATGGTGAAATGTGCA
ACTATACTCCTTGTACTCTGTTTGATCATGATTGTTCTTTTAATTCTTAAGAATATTTTG
TTTTAG

 

Protein translation

MATRNRTTVYRKHRDACKSARAPLSLSASDSFGGPVIEMVSGSFSRSNHSSYAPLNSYDP
GPSSSDAFTIGMPPAWVDDSEEITFNIQKVRDKMNELAKAHSKALMPTFGDNKGIHREVE
MLTHEITDLLRKSEKRLQMLSTRGPSEESNLRKNVQRSLATDLQNLSMELRRKQSTYLKR
LQQQKEDEVDLEFNVNGKMSRLDEEDELGGMGFDEHQTIKLKEGQHVSAEREREIQQVLG
SVNDLAQIMKDLSALVIDQGTIVDRIDYNVQNVSTSVEEGYKQLQKAERTQREGAMVKCA
TILLVLCLIMIVLLILKNILF*

 

Multiple sequence analysis of A. thaliana syntaxin-like sequences. Proteins T10M13.19 and AtTLG2 (synonyms: tSNARE, F2P16.16) are similar to syntaxin sequences. The alignment presented below compares these sequences to human syntaxin-16A (HsSyn16A).

                1                                                         60
        AtTLG2  MATRNRTLLFRKYRNSLRSVRAPLSSSSLTGTRSGGVGPVIEMASTSLLNPNR.SYAPIS 
     T10M13-19  MATRNRTTVYRKHRDACKSARAPL...SLSASDSFG.GPVIEMVSGSFSRSNHSSYAPLN 
 HsSyntaxin16A  MATRRLTDAFLLLRNNS.......................IQNRQLLAEQLADDRMALVS 

                61                                                       120
        AtTLG2  TEDPGTSSKGAITVGLPPAWVDVSEEISVNIQRARTKMAELGKAHAKAL.MPSFGDGKED 
     T10M13-19  SYDPGPSSSDAFTIGMPPAWVDDSEEITFNIQKVRDKMNELAKAHSKAL.MPTFGDNKGI 
 HsSyntaxin16A  GISLDPEAAIGVTKRPPPKWVDGVDEIQYDVGRIKQKMKESASLHDKHLNRPTLDDSSEE 

                121                                                      180
        AtTLG2  QHNIESLTQEITFLLKKSEKQLQRLSASGPSEDSNVRKNVQRS...LATDLQLLSMELRK 
     T10M13-19  HREVEMLTHEITDLLRKSEKRLQMLSTRGPSEESNLRKNVQRS...LATDLQNLSMELRR 
 HsSyntaxin16A  EHAIEITTQEITQLFHRCQRAVQPCRA.GPGPAPSRRGGCLGTWCLVAQALQELSTSFRH 

                181                                                      240
        AtTLG2  KQSTYLKRLRQQKEDGMDLEMNLSRNRYR.PEEDDFGDM.LNEHQMSKIKKSEEVSVERE 
     T10M13-19  KQSTYLKRLQQQKEDEVDLEFNVNGKMSRLDEEDELGGMGFDEHQTIKLKEGQHVSAERE 
 HsSyntaxin16A  AQSGYLKRMKNREERSQHF.FDTSVPLMDDGDDNTLYHRGFTEDQLVLVEQNTLMVEERE 

                241                                                      300
        AtTLG2  KEIQQVVESVNDLAQIMKDLSALVIDQGTIVDRIDYNIENVATTVEDGLKQLQKAERTQR 
     T10M13-19  REIQQVLGSVNDLAQIMKDLSALVIDQGTIVDRIDYNVQNVSTSVEEGYKQLQKAERTQR 
 HsSyntaxin16A  REIRQMVQSISDLNEIFRDLGAMIVEQGTVLDRIDYNVEQSCIKTEDGLKQLHKAEQYQK 

                301                         331
        AtTLG2  HGGMVKCASVLVILCFIMLLLLI.LKEIFL*
     T10M13-19  EGAMVKCATILLVLCLIMIVLLI.LKNILF*
 HsSyntaxin16A  KNRKMLVILILFVIIIVLIVVLVGVKSR*~~

 

I would like to acknowledge the assistance of Anton Sanderfoot at Michigan State Univesity for lending assistance with the annotation of T10M13.19.

written 31 Jul 97
updated 9 Jan 98
updated 3 Aug 98
Larry Parnell