Sequence
atgc intronic sequence ATGC exonic sequence...atttactaatttttatgatcagattcccccaaattgtgtgatttggttttctagaataatggaggacttttagttgatattcagtttatgcaaatggcagGTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTGGCAGAGAACAGTCATCTTTTGGATTCTTAGCTGTGGCTGCAAATTTAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G19280.1 (Glycine max), 3'ss of exon 4
atttactaatttttatgat--cagattcccccaaattgtgtgatttggttttctagaataatggaggacttttagttgatattcagtttatgcaaatggcagGTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTGGCAGAGAACAGTCATCTTTTGGATTCTTAGCTGTGGCTGCAAAT--TTAAT
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attttaaattttaaaagatataaaacactattgtgttgtacagaacaattctttgctctggttggtgctgctta--tcatatcattatgttggcactggcagGTGTTGGATTTGCTTGAAGATGCTTGCGGATCATTACTGGAAACCATTTTGGCAGAAAACAAACATGTACAAGAATCCTAA-TACCTTTATTAATAGCCAA-
upper sequence: Vv06s0061g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G09200.2 (Glycine max), 3'ss of exon 4
atttactaatttttatgatcaga-ttcccccaaattgtgtgat---ttggttttctagaataatggaggacttttagttgat--attcagtttatgca---aatggcagGTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTGGCAGAGAACAGTCATCTTTTGGATTCTTAGCTGTGGCTGCAAAT--TTAAT
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---------ttttaaaaataaaagcactattgtgttgtacagaagacttcttttctttactcttggttgatcctttgcttatcaatcatctttatgttggcactagcagGTGTTGGATTTGCTTGAAGATGCTTGCGGATCATTACTGGAAACCATTTTGGCAGAAAACAAACATGTACAACAATCCTGA-TACCTTTATTAATGGCCAG-
upper sequence: Vv06s0061g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G09200.1 (Glycine max), 3'ss of exon 4
atttactaatttttatgatcaga-ttcccccaaattgtgtgat---ttggttttctagaataatggaggacttttagttgat--attcagtttatgcaaa---tggcagGTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTGGCAGAGAACAGTCATCTTTTGGATTCTTAGCTGTGGCTGCAAATTTAAT
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------ctattttaaaaataaaagcactattgtgttgtacagaagacttcttttctttactcttggttgatcctttgcttatcaatcatctttatgttggcactagCAGGTGTTGGATTTGCTTGAAGATGCTTGCGGATCATTACTGGAAACCATTTTGGCAGAAAACAAACATGTACAACAATCCTGA-TACCTTTATTAATGGC--Mapped 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|351046715|gb|FQ453331.1|FQ453331EST: AAACTGAAGTCCCAGATCCTTACTACGGGGGACCGCAGGGTTTTGAGAAG GTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTG
genomic: AAACTGAAGTCCCAGATCCTTACTACGGGGGACCGCAAGGTTTTGAGAAGgtaatgtata ... caaatggcagGTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTG
EST:
gi|33401488|gb|CF207115.1|CF207115EST: AAACTGAAGTCCCAGATCCTTACTACGGGGGACCGCAAGGTTTTGAGAAG GTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTG
genomic: AAACTGAAGTCCCAGATCCTTACTACGGGGGACCGCAAGGTTTTGAGAAGgtaatgtata ... caaatggcagGTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttctagaataatggaggacttttagttgatattcagtttatgcaaatggcagGTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTGGCAGAGAACAGTCATCTTTTGGATTCTTAGCTGTGGCTGCAAATTTAAT
agttgat putative branch site (score: 5)
ttttagttgatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttactaatttttatgatcagattcccccaaattgtgtgatttggttttctagaataatggaggacttttagttgatattcagtttatgcaaatggcagGTTCTGGATTTACTTGAAGATGCTTGTGAATCATTATTAGACAGCATTTTGGCAGAGAACAGTCATCTTTTGGATTCTTAGCTGTGGCTGCAAATTTAAT
- - - - - - - - - - - -ttccccc
- - - - - - - - - - - - - - - - - tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - agaataa