Sequence
atgc intronic sequence ATGC exonic sequencegtatttttttaatctcacattaagtttaaaagatggattagactgtggctcatgataggtgcttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G081322_T01 (Zea mays), 3'ss of exon 12
---------gtatttttttaatctcacattaagtttaaaagatggatta-gactgtggctcatga--taggtgct-tcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
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gtactgtattcatattttaaatttttgattatgcataaaatatttcctgtggatgagtttcataacttatttgtggtgttgtagGGTCGTATTTATCAAGGAAAAGAGCCACCACAATTTGTGGCTATTTTCCAGCCAATGGTTATTCTTAAG
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G180988_T02 (Zea mays), 3'ss of exon 12
-----gtattttttt---aatct-cacattaagtttaaa-agatggattagactgtggctcatgataggtgcttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
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gtgctgcattttatttcagatgtgcctacaatatttgttcacaggagatggcttttagttatttatagttattt--tgtagGGTCGTATATACCAAGGGAAGGAGCCACCACAGTTTGTTGCACTTTTCCAGCCCATGATTATCTTGAAG
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G21350.1 (Glycine max), 3'ss of exon 11
gtatttttttaatctcacattaagtttaaaagatggattagac--tgtggctcatg-ataggtgcttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
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gtattgtaata--ctaatgtcaagttgaggatgttgcttggaaaatgtgtataatttacagtagtttcttgcagGGTCGCATATTTGAAGGCAAAGAGCCGCCACAGTTTGTTGCTATTTTCCAACCAATGGTGGTTCTCAAG
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 10
gtatttttttaatctcacattaagtttaaaagatggattagac--tgtggctcatg-ataggtgcttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
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gtattgtaata--ctaatgtcaagttgaggatgttgcttggaaaatgtgtatgatttacagtagcttcttgcagGGTCGCATATTTGAAGGCAAAGAGCCGCCACAGTTTGTTGCTATTTTCCAACCAATGGTGGTTCTCAAG
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 12
gtatttttttaatctcacattaagtttaaaagatggattag--actgtggctcatgataggtgcttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
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--gtatccgtaatgtgatattatgttggggattttgcttggaaactctgtataattgtaatagtttctcgcagGGTCGCATATTTGATGGTAAAGAGCCACCACAGTTTATTGCCCTTTTCCATCCAATGGTGGTCCTCAAG
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 12
--gtatttttttaatctcacattaagtttaaaagat--ggattagactgtggctca-tgataggtg-cttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
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gtacaaagttttatttttattgaaagcaatgatgactagtactggaagatcgattactaatgggggtcttcttgtagGGCCGTATATACGAGGGTAAAGAGCCTCCACAATTTGTTGCCCTTTTTCAACCTATGGTGGTCTTAAAGMapped 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|30133877|gb|CB919216.1|CB919216EST: CACGGCTGGCTAATACCATGTTCAACTCACTAAAGGGAAGGCCTGTTCAG GGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAG
genomic: CACGGCTGGCTAATACCATGTTCAACTCACTAAAGGGAAGGCCTGTTCAGgtattttttt ... cttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAG
EST:
gi|161710780|gb|FC059409.1|FC059409EST: CACGGCTGGCTAATACCATGTTCAACTCACTAAAGGGAAGGCCTGTTCAG GGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAG
genomic: CACGGCTGGCTAATACCATGTTCAACTCACTAAAGGGAAGGCCTGTTCAGgtattttttt ... cttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acattaagtttaaaagatggattagactgtggctcatgataggtgcttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
atctcac putative branch site (score: 3)
tgcttcct putative PPT
aagtttaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttttttaatctcacattaagtttaaaagatggattagactgtggctcatgataggtgcttcctacagGGTCGTATATTTCAAGGAAAAGAGCCACCACAGTTTGTTGCCATCTTTCAGCCTATGGTGGTCTTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG