Sequence
atgc intronic sequence ATGC exonic sequencegtatacacaaactaaaaagtgcaatgtgggtggcacacctttccatgtgatctaccactacattcaaaacatggattggctaattaacttatgaattatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0092g00170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G13590.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------------gtatacacaaactaaaaagtgcaatgtgggtgg--cacacctttccatgtgatctaccactacattcaaaacatggattg-gctaat----taacttatgaat-----tatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
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gtttgccaatacataaggagtttttttttttttttactagaaaacaaaacataaacaagtttaaggtgtttatttggtctgttcaaagttaaacataacatctttttaaattataatatatactaggaaattggagtatatttgatttattaagcatgtcaatatagtgatatgtgaatatcgttctaacagGTGAGAATTTTGCAATGATGTCTGGCACAAGCATGGCTGCACCTCATGTTGCTGGTCTTGCTGCACTAGTTAAGCAAAAGTTTCCCAACTTTAGTCCTGC
upper sequence: Vv10s0092g00170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G30460.1 (Glycine max), 3'ss of exon 9
------------------------------------------------------------------------------------------gtatacacaaacta-aaaagtgcaatgtgggtggcacacctttccatgtgatctaccactacattcaaaacatggattggctaattaacttatga-attatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
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gtttgtcaatacataagcttgtttttactagaaaacaaaacataaacaagtttaaggtgtttatttggcctgttccaagttaaacataacatccttttaagttataaatatttatactaggaaataggaattttgattt-attaagcatgtcaatatagtgatatgt-gaatatctgatctacactattctaacagGCGAGAATTTTGCAATGATGTCTGGCACAAGCATGGCTGCACCTCATGTTGCTGGTCTTGCTGCACTAATTAAGCAACAGTTTCCCAATTTTAGTCCTGC
upper sequence: Vv10s0092g00170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G09850.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------------gtatacacaaactaaaaagtgcaatgtgggtggcacacctttccatgtgatctaccactacattcaaaacatggattggctaattaac-ttatgaattatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
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gtttgtaaatacataaaagtttatactaggaaaccaaacataaaatttttgtcaagtttaatgacttgttttgataccaatcatatgttaaaaacaactatataagtaataaactatgctatttttttt-tcaatgcatgctgataatg--tcacataatctgcattgccaa------cagGTGAGAATTTTGCATTGATGTCTGGCACAAGCATGGCTGCACCACATGTTGCTGGTCTTGCTGCACTAATTAGGCAAAAGTTCCCCAATTTCAGTCCTGC
upper sequence: Vv10s0092g00170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G21920.1 (Glycine max), 3'ss of exon 8
----------------------------------------------------gtatacacaaactaaaaagtg-caatgtgg-gtggcacacctttccatgtgatctaccactacattcaaaacatggattggctaattaacttat--gaattattt-cagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
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gtttgtaaatacgtttatactaggaaaccaaacataaaatttcagtcaagtttaatgagttgttttgataccaatcatatattaaaaaacaacttttcaagtaataaacta-tgcatgttgataatg--tcacataattatcttatctgcattgtcaacagGTGAAAATTTTGCATTGATGTCTGGCACAAGCATGGCTGCACCACATGTTGCTGGTCTTGCTGCACTAATTAGGCAAAAGTTCCCCAATTTCAGTCCTGC
upper sequence: Vv10s0092g00170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G44530.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatacacaaactaaaaagtgcaatgtgggtggcacacc-tttccatgtgatctaccactacattcaaaacatggattggctaattaacttatgaattatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
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--------------------------------gtaaactatatacaagtgatcaaaacagaggattttcctattgac-gttttcttctgttttgctctgttt-agGTGAGAAATTTGCGATGATGTCCGGTACAAGTATGGCTGCTCCTCATGTAGCTGGTGTGGCTGCATTAATCAAACAAAGTTATCCACAGTTTACTCCTTC
upper sequence: Vv10s0092g00170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G20430.2 (Arabidopsis thaliana), 3'ss of exon 9
gtatacacaaactaaaaagtgcaatgtgggtggcacacctttccatgtgatctaccactacattcaaaacatggattggctaattaacttatgaattatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
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-----------------------gtatacaaagcatgacattg-atatagttgatgac---attcccatt-taaactgttgtgtt--ccttttgctcattttagGAGAAAGTTTTGCGATGATGTCTGGTACGAGTATGGCTGCTCCTCATGTAGCTGGTGTGGCTGCATTGGTCAAGCAGAAATTCAGAAAGTTTAGTCCTTCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|33404296|gb|CF209923.1|CF209923EST: TATATGGGCTGCTTGGAGTTCCCTTGGCACAGATTCTGTTGAATTCCTAG GAGAGAACTTTGCAATGATGTCTGGGACAAGCATGACTGCTCCTCATGTTT
genomic: TATATGGGCTGCTTGGAGTTCCCTTGGCACAGATTCTGTTGAATTCCTAGgtatacacaa ... attatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctaccactacattcaaaacatggattggctaattaacttatgaattatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
aattaac putative branch site (score: 2)
ttatttc putative PPT
taattaacttatgaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacacaaactaaaaagtgcaatgtgggtggcacacctttccatgtgatctaccactacattcaaaacatggattggctaattaacttatgaattatttcagGAGAGAACTTTGCAATGATGTCTGGGACAAGCATGGCTGCTCCTCATGTTTCTGGGCTTGCAGCATTGATTAAGCAGAAGTTTCCCAAGTTCAGTCCGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT