Sequence
atgc intronic sequence ATGC exonic sequence...ttgatctaaacagaagaagatatattgatattttatttttaagatttttacaataacaaagtaggtttggaatcaacatatgctgtttttttcttttcagGCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCACGGCAAATGTTTAAAGTTCCAATCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 9
---ttgatctaaacagaagaagatatattgatattt-tatttttaagatttttacaataacaaagtaggtttggaatcaacatatgctgtttttttcttttcagGCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCACGGCAAATGTTTAAAGTTCCAATCCAA
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gtgctaacttcattttcagaaaagtaacttgtatccatagacttagttattatgggatagcttctcggg---gcaatctg-attggcgaaatatctttttctagGCATATGCTGTTGGAAGGGCACTTACTCAAAAGCTCAAGGAACTTATACCTCGGCAAATGTTTAGAGTTCCTATTCAA
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA06G16700.1 (Glycine max), 3'ss of exon 18
-------ttgatctaaacagaagaagatatattgatattttatttttaagatttttacaataacaaagtaggtttggaatcaacatatgctgtttttttcttttcagGCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCACGGCAAATGTTTAAAGTTCCAATCCAA
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aaaccattataattaaatttggctgcatatcttgtgattatacttttta-attttgatgtcaataaattat-cagaaaatcaacagaggct-----tgtattttcagGCATATTCGGTGGGAAGGGCTTTGACTCTAAAGTTGAAGGAGCTAATACCACGACAAATGTTTAAAGTACCAATTCAA
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 18
-----ttgat--ctaaacagaagaagatatattgatattttatttttaagatttttacaataacaaagtaggtttggaatcaacatatgctgtttttttcttttcagGCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCACGGCAAATGTTTAAAGTTCCAATCCAA
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acaccatgatagttaaatttggctgcatatcttgtgattatacttttta-attttgatgtcaataaattat-cagaaaatcaacataggct-----tgtattttcagGCATATTCGGTGGGAAGGGCTTTGACTCTAAAGTTGAAGGAGCTCATACCACGACAAATGTTTAAAGTACCAATTCAA
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 18
-------ttgatctaaacagaagaagatatattgatattttatttttaagatttttacaataacaaagtaggtttggaatcaacatatgctgtttttttcttttcagGCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCACGGCAAATGTTTAAAGTTCCAATCCAA
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aaagctcttacggcagagattagtacatctctcacgatttagcaatgatttatatcttgtcctcacagtat-tgtggaatcgttttgtactgtgattc------cagGCATATTCCGTTGGGAGAGCTTTGACTCAGAAACTCAAAGAGCTTATTCCACGACAAATGTTTAAAGTGCCCATCCAGMapped 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|22010264|gb|BQ795298.1|BQ795298EST: TGAATGGTGAACGTGTGGAACCATTGGCAACTATTGTACACAAAGATAAG GCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCA
genomic: TTAATGGTGAACGTGTGGAACCATTGGCAACTATTGTACACAAAGATAAGgtaacataag ... ttcttttcagGCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttacaataacaaagtaggtttggaatcaacatatgctgtttttttcttttcagGCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCACGGCAAATGTTTAAAGTTCCAATCCAA
caataac putative branch site (score: 2)
tgctgtttttttcttt putative PPT
tgtttttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgatctaaacagaagaagatatattgatattttatttttaagatttttacaataacaaagtaggtttggaatcaacatatgctgtttttttcttttcagGCGTATGCTGTGGGGAGAGCATTGACTCAAAAGCTTAAGGAACTTATACCACGGCAAATGTTTAAAGTTCCAATCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - -agaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - caataac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatcaa