Sequence
atgc intronic sequence ATGC exonic sequence...gctatacactgtctttctcattttcatttcttgctgatattgatcaatcatcaatgtgggattagtttttgaagtttgattgcttgatttcattatacagGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G09360.1 (Glycine max), 3'ss of exon 1
gctatacactgtctttctcattttcatttcttgctgatattgatcaatcatcaatgtgggattagtttttgaagtttgat-tgcttgatttcattatacagGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGG
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cttgtctgccgtggtgttgattattggaactgtctcttaatt-tctttctcgtgtgtggtgctgagttttaaaatccattcttgtttatttcactgtctagGGTTTCTTCAACTTTACAGCAAGGCGGCCAAGCCATCTGCTGAAGATTTTGGAGCTTGGATATAGTGTGATGTACAATGATGTTGATATGGTTTGGTTGG
upper sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G56550.1 (Arabidopsis thaliana), 3'ss of exon 1
gctatacactgtctttctcattttcatttcttgctgatattgatcaatcatcaatgtggg-attagtttttgaagtttgat-tgcttgatttcattatac-agGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGG
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-acattaacatcataaaagagttagaccaaatg-tgataat-atatgcaaagaatttgaatactgcaatccgatgttttacctaatttattatattatattagGGTTTCTTCAATCTGACATCTCGGAGGCCACAACATCTCTTAAACATTTTGGAGCTAGGTTACAATGTTATGTACAATGATGTTGATATGGTCTGGCTAC
upper sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G01770.1 (Arabidopsis thaliana), 3'ss of exon 1
-gctatacactgtctttctcattttcatttcttgctgatattgatcaatcatcaatgtgggattagtttttgaagtttgattgcttgatttcattatac-agGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGG
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ttgaaaaaaaaagattggtggtctagggccattgcttttattatttctgtgtgtgaagaaaacttatgttttca--ctaatttactcatcatatccgactagGGTTTCTTCAATTTCACAGCTCGAAGGCCGCAACATCTCTTGCAAATTTTGGAGCTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGC
upper sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G01750.1 (Arabidopsis thaliana), 3'ss of exon 1
gctatacactgtctttctcattttcatt---tcttgctgat-attgatcaatcatcaatgtgggattagtttttgaagtttgattgcttgatttcattatac------agGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGG
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---------tttctttcggatcttgatcaaatccaaatgattatgtatcccctgtttctttgtaatgaaaacatatattttcactaatttact-catcatatccgactagGGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTGGAGCTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGC
upper sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G01220.1 (Arabidopsis thaliana), 3'ss of exon 1
--gctatacactgtctttctcattttcatttcttgctg--atattgatcaatcatcaatgtgggattagtttttgaagtttgattgcttgatttcattatacagGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGG
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tagcagcagccatttttcccctgtttctgtatgtgatactatatatgctaagagcttgtattacaatggaatcgattgtttaaac---taatttc-ttgtatagGGATTCTTCAATTTCACAGCACGGAGGCCGCAACATCTCTTGGAAATTTTGGAGTTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGCMapped 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|110729936|gb|EE106444.1|EE106444EST: TTGTTCCGCCTGCCCCAGATGCTCAAGTTGCCCATAAGTTCGGTTCTCAG GGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTG
genomic: TTGTTCCGCCTGCCCCAGATGCTCAAGTTGCCCATAAGTTCGGTTCTCAGgtatatagca ... cattatacagGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcatcaatgtgggattagtttttgaagtttgattgcttgatttcattatacagGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGG
gcttgat putative branch site (score: 5)
tttcatt CT-rich tract
ttgatttcattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctatacactgtctttctcattttcatttcttgctgatattgatcaatcatcaatgtgggattagtttttgaagtttgattgcttgatttcattatacagGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - -ttcttgc
- - - - - - - - - - - - - - - - - - - - - -tcaatca
- - - - - - - - - - - - - - - - - - - - - - - - - -caatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttga