Sequence
atgc intronic sequence ATGC exonic sequence...aatagctttcaaaggctttcttatctttaagtcttaatctaatttagatcaacatttgcacattcattatgtgattcttcctgcttttaatgtattgcagCCGTAAATGGATTGGGGGAGAGGTCATGAAGGCTCTAGCCTATGATGTGCCAATTCCAGGATACAAAACCAAAAACACTATAAGCCTTCGTCTCTGGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G085577_T01 (Zea mays), 3'ss of exon 4
aatagctttcaaaggctttcttatct-ttaagtcttaatctaatttagatcaacatttgcacat---tcattatgtgattcttcctgcttttaatgtattgcagCCGTAAATGGATTGGGGGAGAGGTCATGAAGGCTCTAGCCTATGATGTGCCAATTCCAGGATACAAAACCAAAAACACTATAAGCCTTCGTCTCTGGGAA
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--tctccctgactttttttgttatttatttcgtgttatgggtggttatttgagggctttgatgtaactcgttatatgattgctttt--ttttatcatgtgatagTCGGAAATTGGTCGGAGGAGAAGTCCTGAAGGCTTTAGCATATGATGTGCCAATCCCTGGATACAAGACAAAAAATGCAATCAGTCTTCGTCTTTGGGAA
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G07480.1 (Glycine max), 3'ss of exon 4
--------------------------------aatagctttcaaaggctttcttatctttaagtct--taatctaatttagatcaacatttgcacattcattatgtga-ttcttcctgcttttaatgtattgcagCCGTAAATGGATTGGGGGAGAGGTCATGAAGGCTCTAGCCTATGATGTGCCAATTCCAGGATACAAAACCAAAAACACTATAAGCCTTCGTCTCTGGGAA
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gtaagtgtaaatatactgagttactttataaaatcagttttaggctattgatttatgactatctttgatggtgaaaacataatccttttttctttaaatgatatgaaagtacttacagtttggtgtttataccagCCGAAAATGGGTTGGAGGAGAGGTAGTGCAAGCACTGGCTTATGATGTGCCAATTCCAGGTTACCAAACCAAGAACACTATCAGTCTTCGCCTCTGGGAG
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 5
--------------------------------aatagctttcaaaggctttcttat--ctttaagtcttaatctaatttagatcaacatttgcacattcattatgtgattcttcctgc-ttttaatg--tattgcagCCGTAAATGGATTGGGGGAGAGGTCATGAAGGCTCTAGCCTATGATGTGCCAATTCCAGGATACAAAACCAAAAACACTATAAGCCTTCGTCTCTGGGAA
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gtaagtgtaaatacactgagttactttataaaatcagttttaggccgttgatttatgactttctatgatggtgaaaccataatc--ctttttcctgtaaatgatatgaaagtacttacattttggtgtttataccagCCGAAAATGGGTTGGAGGAGAGGTTGTGCAAGCACTGGCTTATGATGTGCCAATTCCAGGTTACCAAACCAAGAACACCATCAGTCTTCGTCTCTGGGAGMapped 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|122689432|gb|EC939313.1|EC939313EST: GTATTTCCTGTCAGATTCTTTGGTCACGTTGCAGTCAGTCCCTCTGGATC CCGTAAATGGATTGGGGGAGAGGTCATGAAGGCTCTAGCCTATGATGTGCC
genomic: GTATTTCCTGTCAGATTCTTTGGTCACGTTGCAGTCAGTCCCTCTGGATCgtaagtgtag ... tgtattgcagCCGTAAATGGATTGGGGGAGAGGTCATGAAGGCTCTAGCCTATGATGTGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatcaacatttgcacattcattatgtgattcttcctgcttttaatgtattgcagCCGTAAATGGATTGGGGGAGAGGTCATGAAGGCTCTAGCCTATGATGTGCCAATTCCAGGATACAAAACCAAAAACACTATAAGCCTTCGTCTCTGGGAA
ttttaat putative branch site (score: 3)
ttttaatgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatagctttcaaaggctttcttatctttaagtcttaatctaatttagatcaacatttgcacattcattatgtgattcttcctgcttttaatgtattgcagCCGTAAATGGATTGGGGGAGAGGTCATGAAGGCTCTAGCCTATGATGTGCCAATTCCAGGATACAAAACCAAAAACACTATAAGCCTTCGTCTCTGGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - catttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattcat