Sequence
atgc intronic sequence ATGC exonic sequence...gttgagtctttgcataatgccagaatcattgattttatttgcttcaaaagtgtgttggtaagtttgtcttaactgtggttatttgtttaggtggtttcagATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g14770.1 (Oryza sativa), 3'ss of exon 4
-------------------------------------gttgagtctttgcataatgccagaatcattgatttta----tttgcttcaaaag-tgtgt-tggtaagtttgtcttaactgtggttatttgtttaggtggtt---------tcagATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT
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gttattgtctacacatcttccatcatccgtgaaatttcttgtcttctcgtttgctaagggaactattgttagtagtgttttatttctaaagctctgtatgttgaacttttgacaggcaatttttgtagcctaaatttctctttgctcattagATTGAACTTGCAAGAGATATGGGTTATGCTGCTGCAAGGTATGGTCATGTGATGTTTCCAGAGAATGTTCATGAACCTGCTCTTCGTTGTGCAGAACTTT
upper sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G102156_T02 (Zea mays), 3'ss of exon 4
------------------------------------------------------------------------------------------gttgagt-ctttgcataatgccag--aatcattg-attttatttgcttcaaaagtgtgttggtaagtttgtcttaactgtggttatttgtttaggtggtttca---gATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT
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gttttgtcctcacagatctggatatgtgttttatttcacatcttcttatttttgctacaagaactcccttttacactttttattggtaaagttgtgtattttaacttttgacaagcaatttttgtagcctaaacttgtggaacttttgacaggacttttttgtagcctaaaaccctaaacttctctttactcattagATTGAACTTGCAAGAGATATGGGCTATGCTGCCGCAAGATATGGTCATGTGATGTTTCCAGAGAATGTTCATGAGCCTGCTCTTCATTCTGCGGAAGTTT
upper sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G01170.1 (Glycine max), 3'ss of exon 4
---gttgagtctttgcataatgccagaatcattgattttatttgcttcaaaagtgtgttggtaagtttgtcttaactgtggttatttgtttaggtggtttcagATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT
| | | | || || ||| || | | | | | | | | ||| |||| | | |||||||| ||||||| ||| ||||| || || |||| |||||||||||||||||||||||||||||||| |||||||||||| |||||||||| || | ||||| || ||||
gataccaactatgtttggcatatttaaac--ttggttgccccttcat-gatatcatctctccagttttcctttaatgcaatctttccatttaggtgatttcagACTGAACTTGCTAGGGAGATGGGATATGCTGCTGCAAGATTTGGGCATGTAATGTTCCCTGAGAATGTTCATGAGCCAGCCTTGAATTGTGCTGAGCTTT
upper sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G57590.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------gttgagtctttgcataatgccagaatcattgattttatttgcttcaaaagtgtgttggtaagtttgtc---ttaactgtggttatttgtttaggtggtttcagATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT
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gtcatctgtgcccattatttcccagttttatgacaaatatcagttccacgtgcattattatg-tcatagattttaatgcttacctctctttgtgatgaatcttctgaagtttattttgaaattttgtttaggctgtttcagGCTGAGCTTGCTAGAGAAATGGGTTACACTGCTGCTAGGTTTGGGCATGTTATGTTCCCTGAGAATGTATATGAACCTGCCTTGAAGTGCGCTGAGCTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaagtgtgttggtaagtttgtcttaactgtggttatttgtttaggtggtttcagATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT
tcttaac putative branch site (score: 2)
ttatttgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgagtctttgcataatgccagaatcattgattttatttgcttcaaaagtgtgttggtaagtttgtcttaactgtggttatttgtttaggtggtttcagATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT
- - - -ctttgca
- - - - - - - taatgcc
- - - - - - - - - - -agaatca
- - - - - - - - - - - - - - - - - - - - - ttcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -gtgttgg