Sequence
atgc intronic sequence ATGC exonic sequence...agaaaaaataaacttttgtttggaaatgctactgtctagacgccttttaaaatgctgctgtctcgacaccttttaactgggtgttatatttttattgcagCATTGAGACTATTACACTTGGGGATAAAAGGATAGGGATCAAAACTAGTGTTTTGGAAGAAAAGGCCACAGCTTGCAACATGCTATGTTGCTATGCTGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os07g38760.1 (Oryza sativa), 3'ss of exon 7
agaaaaaataaacttttgtttggaaatgctactgtctagacgccttttaaaatgctgctgtctcgacaccttttaactgggtgttatatttttattgcagCATTGAGACTATTACACTTGGGGATAAAAGGATAGGGATCAAAACTAGTGTTTTGGAAGAAAAGGCCACAGCTTGCAACATGCTATGTTGCTATGCTGAT
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ttcagaaatatatcatccttttttatgtgaggtgtggtggttgtttttagcttcttgttggttctgcaatattgcccctaatctttttcactcaatacagCATTGAAACAATTACGCTTGGCGACAAAAGAATAGGTATCCGAACTAGTGTACTAGAAGAGAAAGCAACAGCTTGCAACATGCTATGCTGTTATGCTGAT
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G887631_T01 (Zea mays), 3'ss of exon 7
--agaaaaaataaacttttgtttggaaatgctac-tgtctagacgccttttaaaatgctgctgtctcgacacct--tttaactgggtgttatatttttattgcagCATTGAGACTATTACACTTGGGGATAAAAGGATAGGGATCAAAACTAGTGTTTTGGAAGAAAAGGCCACAGCTTGCAACATGCTATGTTGCTATGCTGAT
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ctgttatttatggacttctc-----aaatctcacatgcttctactgttatttaaatgtgtatatatttatttctaacatatcctaaatttttatgttctatacagCATTGAAACAATTACACTTGGTGACAAAAGAATAGGAATTCGAACTAGTGTGCTGGAAGAGAAAGCAACAGCTTGCAACATGCTGTGCTGTTATGCTGAT
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G29010.1 (Glycine max), 3'ss of exon 7
---aga---aaaaataaacttttgtttggaaatgctactgtctagacgccttttaaaatgctgctgtctcgacaccttt-taactgggtgttatatttttattgcagCATTGAGACTATTACACTTGGGGATAAAAGGATAGGGATCAAAACTAGTGTTTTGGAAGAAAAGGCCACAGCTTGCAACATGCTATGTTGCTATGCTGAT
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tttagatctgaaaatgaagaagaaat-agatatgg-attatactgatggatattttggttttgtt-tttaaatacttttgtatctggctgttcttctttt----tagCATTGAAACAATTACACTTGGGGATAAAAGGATAGGCATTAAGACTAGTGTGTTGGAGGAGAAGGCCACTGCTTGTAACATGCTATGTTGCTATGCTGAT
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G04400.2 (Glycine max), 3'ss of exon 7
---aga---aaaaataaacttttgtttggaaatgctactgtctagacgccttttaaaatgctgctgtctcgacaccttt-taactgggtgttatatttttattgcagCATTGAGACTATTACACTTGGGGATAAAAGGATAGGGATCAAAACTAGTGTTTTGGAAGAAAAGGCCACAGCTTGCAACATGCTATGTTGCTATGCTGAT
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tttagatctgagaatgaagaagaaat-agatatgg-attatactgatggatattttggttttgtt-tttaaatacttttgtatctggctgttcttctttt----cagCATTGAAACAATCACACTTGGGGATAAAAGGATTGGCATTAAGACTAGTGTCTTGGAGGAGAAGGCTACCGCTTGTAACATGCTATGTTGCTATGCTGAT
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S31_225V6.1 (Physcomitrella patens), 3'ss of exon 7
agaaaaaataaacttttgtttggaaatgctactgtctagacgccttttaaaatgctgctgtctcgac--accttttaactgggtgttatatttttattgcagCATTGAGACTATTACACTTGGGGATAAAAGGATAGGGATCAAAACTAGTGTTTTGGAAGAAAAGGCCACAGCTTGCAACATGCTATGTTGCTATGCTGAT
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tggtgatcttttctagagtttagtggcgc--gtgctagaacactctatgttctgatttgggtttaatttgccttattctcaaacggaatggtctgatttcagCGTGGAGACGATCACTATTGGGGACAAAAAAATTGGCATTCGCACAAGTGTTTTGGAAGAAAAGGCGACTGCATGCAACATGCTCTGTTGTTATGCGGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaaaatgctgctgtctcgacaccttttaactgggtgttatatttttattgcagCATTGAGACTATTACACTTGGGGATAAAAGGATAGGGATCAAAACTAGTGTTTTGGAAGAAAAGGCCACAGCTTGCAACATGCTATGTTGCTATGCTGAT
ttttaac putative branch site (score: 2)
tttttatt putative PPT
tgttatatttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaaaaataaacttttgtttggaaatgctactgtctagacgccttttaaaatgctgctgtctcgacaccttttaactgggtgttatatttttattgcagCATTGAGACTATTACACTTGGGGATAAAAGGATAGGGATCAAAACTAGTGTTTTGGAAGAAAAGGCCACAGCTTGCAACATGCTATGTTGCTATGCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- aaaaaat
- - - - - - - - tgtttgg
- - - - - - - - - - - - -atgctac
- - - - - - - - - - - - - - - - - - - - - - - - - - -gctgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgacacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggtgtt