Sequence
atgc intronic sequence ATGC exonic sequencegtattacatctttctggtctgccagatgtttggtgattttgcccaatatgtttgttgccagttgacacttaaatgattttagGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 3'ss of exon 3
gtattacatctttctggtctgccagatgtttggtg-at-tttgcccaatatgtttgttg-ccagttgacacttaaatgatttta----gGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
|| || | | | || || ||| || ||| | | |||||||| | | | | | |||| | ||| |||||||| ||||||||||| ||||| ||||| || ||||| | ||||||||||||| || |||||||| |||||||| ||| | ||| || |
---gtatgcctaaatcctttcaataattttgagtgcatatttacatcaattgtttgttctctgagttctatgtttttcatttcacaaagGTTGAGCATGTCAAAGCTGAAAGAAATCTTCTTGCTGAAGTGGATCACCATTGCATTGTTAAGCTATACTGTTCATTCCAAGACAGTGAATATCTGTACC
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G32160.1 (Glycine max), 3'ss of exon 3
----------------gtattacatctttctggtctgccagatgtttg-gtgattttgcccaatatgtttgttgc-cagttgacact-taaatgattttagGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
| ||||| | | | | |||||| || | | ||| | | | | | | | | ||| ||||||||| || ||||||| ||||||||||||||| || |||||||| |||||||||||||| ||||||||||| |||||||| |||||||| || | | | ||||
gttagcaaccatttgtcttctacattatattctacaaactaatgtttttatgttaaaggataatgaagtcatcacacttctaatgttgttaattattttagGTAGAACATGTTAGAGCTGAAAGGAATCTCCTAGCAGAGGTTGACAGCAATTGCATAGTTAAACTTTATTGTTCTTTTCAAGATGACGAATATTTGTATC
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G18670.1 (Glycine max), 3'ss of exon 3
----------------------gtattacatctttctggtc----tgccagatgtttgg-tgattttgcccaatatgtttgt--tgccagttgacactta--aatgattttagGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
|||| | ||| ||| | || |||| || | || ||||| | | | | || | || ||| ||| |||| |||||||||||||||||||||||||| || |||||||| ||||| |||||||| || || ||||| |||||||||||||||||||| | | | ||||
gtttacaatcattgatcttgccagattatgttattccagtccagatattagtagtttaaatgcctatggtcaataaagtcatcatacttattcctatttgttaatattttcagGTTGAGCATGTTAAAGCTGAAAGGAATCTCCTCGCAGAGGTTGACAGAAATTGCATAGTCAAGCTTTATTGTTCTTTCCAAGATGATGAATATTTGTATC
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G04410.2 (Glycine max), 3'ss of exon 4
---------------------gtattacatctttctggtc----tgccagatgtttgg-tgattttgcccaatatgtttgttgccagttgacactta------------aatgattttagGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
|||| | ||| ||| | || |||| || | || ||||| | | | | || | ||||| ||| ||| |||| |||||||||||||| ||||||||||| ||||||||||| |||||||||||||| || || ||||| ||||||||||| |||||||| | | ||||
gttacaatcattgatcttgctagattatgttattccagtccagatattagtagtttaaatgcctatggtcaataaggtcatcat-actttatacttattcctgtttgttaatattttcagGTTGAGCATGTTAAAGCCGAAAGGAATCTCCTTGCAGAGGTTGACAGCAATTGCATAGTCAAGCTTTATTGTTCTTTCCAGGATGATGAACATTTGTATC
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G34920.1 (Glycine max), 3'ss of exon 3
--------------gtattacatctttctggtctgccagatgt----ttggtgattttgcccaatatgtttgttgccagttgacactta--aatgattttagGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
|| || | | || | || | | | | || || | | ||| | | | | || ||| ||||||||| || ||||||| ||||||||||||||| || |||||||| |||| ||||||||| ||||||||||| |||||||| |||||||| || | | | ||||
gttagtaaccatttgtcttcta-cattatatcctacaaaaaatagtttttatgttaaaggttaatgaatacatcatacttctaattttgttaattattttagGTAGAACATGTTAGAGCTGAAAGGAATCTTCTGGCAGAGGTTGACAACAATTGCATAGTTAAACTTTATTGTTCTTTTCAAGATGACGAATATTTGTATC
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 3'ss of exon 3
---------gtattacatctttc-tggtctgccagatgtttggtgattttgccca-atatgtttgttgcca----gttgacactta---aatgattttagGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
| || | | | | | | | || ||| || | || | | | |||| |||| | || | ||| ||||||||||||| ||||| || || ||| ||||||||||||| || |||||||| ||||| || | || || || || |||||||| |||| | | |||
tcatcataagaatgataacaataataatgataaatatttttatcgactatgatagtgaaaaatcatagccattgaattgaaaattttgcggtaattgcagGTGGAGCATGTAAAAGCAGAGAGAAATTTGCTTGCAGAGGTCGATAGCAATTGTATTGTGAAGTTGTATTGCTCGTTTCAAGATGAGGAGTATTTGTATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttggtgattttgcccaatatgtttgttgccagttgacacttaaatgattttagGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
agttgac putative branch site (score: 4)
acttaaatgatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattacatctttctggtctgccagatgtttggtgattttgcccaatatgtttgttgccagttgacacttaaatgattttagGTGGAGCATGTTAAAGCTGAAAGGAATCTGCTTGCAGAGGTGGACAGCAATTGCATTGTTAAACTTTACTGTTCTTTCCAAGATGATGAGTTTCTTTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG