Sequence
atgc intronic sequence ATGC exonic sequence...gtggtttctaatgatatgctcagttttctcatccatgataaccgtatgatttaccattttttgactatgctcttttcacttcttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 2
------------------------------------------------------------------gtggtttc-taatga-tatgctc-agttttctcatccatgataaccgt-atgatttaccattttttgacta-tgctcttttcacttcttttgaacaaa-------------attgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
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gtgatgattctagggcagttttcttgagatctggtaacctgtgctctttggcttcacttgctcgaagtggtttcctgatgaacatgagagagaatgttgaaaaattcttgctgtgacggggttcaatggattaaagggctctctttttggtgttgagtgacaagaagtttgtggttgatttcagGTTGAATGCACAATTCCGAAAGATGATGGGACTTTAGCATCTTATGTTGGGTTTAGGGTCCAACACGACAATGCTAGGGGACCTATGAAGGGTGGAATCA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G178415_T03 (Zea mays), 3'ss of exon 2
---------------gtggtttctaatgatatgctcagttttctcatccatg-ataaccgtatgatttaccattttttgactatgctcttttcacttcttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
|| ||| ||| | | || | |||| | | || ||| ||||| | || |||||| || || |||| ||||||||||| ||||| || || ||||| ||||| ||||||||||| | ||||||||| |||||||||||||| |||||||| || || |||||||| || ||||
acttaaccaggatcagtattttataaggttcatctgggctttcccccctatccgaaacagtatgttcaac----ttttgagtaa--------caagcagtttgtg----gttgcagGTTGAATGCACAATCCCAAAAGATGATGGAACTTTGGCATCCTATGTTGGATTTAGGGTTCAACATGATAATGCTAGGGGACCTATGAAGGGTGGAATCA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G07940.1 (Glycine max), 3'ss of exon 2
--gtggtttctaatgatatgctcagtttt-ctcatccatgataaccgtatgatttaccattttttgactatgctcttttcacttcttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
||| || |||| || ||||| || | | || | ||| | ||| || | || | | | ||||| ||| ||||||||||||| ||||| |||||||| ||||| | ||||| | |||||||||||||| ||||||||||| ||||| |||||||||||||| ||||||||||
tgatggcacct--tgatggcttctgttttgttcttattttgtatttatcagata-agcataaaatgcaactctagttctaaaacatgttgaatgaaaatgcagGTTGAGTGTACCATCCCCAAAGATGATGGAAGCTTGGCCACTTTTGTTGGATTCAGAGTTCAACATGATAATGCCAGAGGCCCCATGAAAGGAGGGATCA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G26940.1 (Glycine max), 3'ss of exon 1
--gtggtttctaatgatatgctcagttttct-catccatgataaccgtatgatttaccattttttgactatgctcttttcacttctt-ttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
| |||| || || || || ||| |||||| | || | || ||| ||| | || | |||| ||||| ||| |||||||||| || ||||| |||||||| ||||| | ||||| | ||||||||||||||| |||||||||| |||||||||||||||||||| ||||||||||
tcatagttttgttgtgcatactatgtctttaacatatatgata--tgcataacata--gtttagcaactcctccagttctaaatcttgttgaatgaaaatgcagGTTGAATGTACCATCCCCAAAGATGATGGCAGCTTGGCCACTTTTGTTGGATTCAGGATTCAACATGATAATGCTAGAGGCCCCATGAAAGGAGGGATCA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 1
-------------------gtggtttctaatgatatgctc------agttttctcatccatgataaccgtatgatttaccattttttgactatgctc-ttttcacttcttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
||| ||| | | | || || | || | | | | || ||| ||| || || | | || | | | | | || |||| | |||||||||| || |||||||| ||||| ||||| || ||| ||| | |||||| ||||||||||||||||| ||||| |||||||||||||| ||||| ||||
gcaagtaaaattacttcttgtgtttttcatttctttgttctggcaaaattagtttacttgttttcactgtactgtttcatatagttcaccaactctagctctaaatcatgtttcacaataatgcagGTTGAATGTACCATACCTAAAGATGATGGCACGTTGCAATCTTATGTTGGGTTCAGGGTTCAACATGATAATGCCAGAGGCCCCATGAAAGGAGGAATCA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G04560.2 (Glycine max), 3'ss of exon 2
-------------------gtggtttctaatgatat-------gctcagttttctcatccatgataaccgtatgatttaccattttttgactatgctcttttcacttc--ttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
||| || | ||| | || | || | | | | || || ||| || || | | || || | | | || |||| | |||||||||| || |||||||| ||||| ||||| || ||| ||| | ||| || ||||||||||||||||| ||||| |||||||||||||| ||||| ||||
gcacgtaaaattgcttcttgtgtgttttcatgtccttgttctggcaaaattagtttacttgttttcactatactgtttcatatagttcaccaactctagttctaaataaatgtttcacaataatgcagGTTGAATGTACCATACCTAAAGATGATGGCACCTTGCAATCTTATGTAGGGTTCAGGGTTCAACATGATAATGCCAGAGGCCCCATGAAAGGAGGAATCA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G16320.1 (Glycine max), 3'ss of exon 2
gtggtttctaatgatatgctcagttttctcatccatgataaccgtatgatttaccattttttgactatgctcttttcacttcttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA--------------
| ||| || |||| ||||| || |||||||| ||| | ||||| || ||| ||| | |||||| ||||||||||||||||| |||| | |||||||||||| ||||| ||||
----------------------------------------------------------------------------------gtcagaataa---tgcatgttgaatgtaccatacctaaacatgatggcacgttgcaatcttatgttgggttcagGGTTCAACATGATAATGGCACAGGCCCCATGAAAGGAGGAATCAGATACCATCCTGAG
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 1
gtggtttctaatgatatgctcagttttct-catccatg-ataaccgtatgatttaccattttttgactatgctcttttcacttcttttgaacaaa-attgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
| ||| | | ||| ||||||| | ||||| ||||| | | | | | | | || ||| | | | ||| ||||||||| || || |||||||| ||||||||||| ||| | ||||| |||||||||||||| |||||||| |||||||| ||||| |||||||| || || ||||
-----gttcgatgttttcctctgttttcttcttccatctataacagatctgcagaaccgatccggttcaagatcatttgaacggaactaaccaactattgcagGTGGAATGTACCATACCAAAAGACGATGGAACTCTAGCATCCTTTGTTGGATTCAGAGTTCAACACGACAATGCAAGAGGTCCCATGAAAGGTGGAATCA
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 1
--gtggtttctaatgatatgctcagttttctcatccatgataaccgtatgatttaccattttttgactatgctcttttcacttcttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
| | | | ||||| ||| | | | | | || || || | || | | | || || || | ||| |||| || || |||||||| |||||||||||||| | |||||||| ||||| ||||| |||||||| |||||||| ||||| |||||||| || || ||||
ccgacccgcttttttgtggatccagttacttcaatc-cggttgctgaattatataaccggaacaaaccaatttaaatcaaccggttctgg-tatttttgtagGTGGAATGTACCATACCGAAAGACGATGGTACACTAGCATCATTCGTTGGGTTCAGAGTTCAACACGACAATGCAAGAGGTCCCATGAAAGGTGGAATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatttaccattttttgactatgctcttttcacttcttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
ttttgac putative branch site (score: 3)
ttttgaacaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtttctaatgatatgctcagttttctcatccatgataaccgtatgatttaccattttttgactatgctcttttcacttcttttgaacaaaattgcagGTTGAGTGCACCATACCCAAAGACGATGGTACTTTGGCATCATTTGTTGGATTCAGGGTTCAACATGACAATGCTAGAGGCCCCATGAAGGGAGGGATCA
- - - - - - - tatgctc
- - - - - - - - - - - - - - tcatcca
- - - - - - - - - - - - - - - - - - - - -ccgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccatttt