Sequence
atgc intronic sequence ATGC exonic sequence...agaactcatcaaagatattcataccattgggtgattgttgatttgttatgaatttgttacttctaaatgatggtcttttcttacatgtgtgttcatacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G00580.2 (Glycine max), 3'ss of exon 2
agaactcatcaaagatatt-cataccattgggtgattgttgatttgttatgaatttgttacttctaaatgatggtcttttcttacatgtgtgttcatacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
| ||| |||| | ||| || | || | || ||| ||||| | | | || | ||| | | || |||||||||||| ||||||||||| || |||||||| ||||||||||||||||||||| | ||| | || ||||||||||||| ||||| | ||| |||
ttctgttatctcagatgtgatatattatgtgcaaatacctaatggaaacagaaattgtttcaagtctttaataagacctaaagtcatttctttttg-gcagACGTAATATGCTAGAGAAGAAGTTGGCTGATGCCGAAGTCTCTGAGGAAGAGCAACACAACTTGCTTCAGCATTTGGAGAAAAAGGAGAGGGAAATCATG
upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G00830.1 (Glycine max), 3'ss of exon 1
agaactcatcaaagatatt-cataccattgggtgattgttgatttgttatgaatttgtt---acttctaaatgatggtcttttcttacatgtgtgttcatacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
| || ||| | ||| | | || | || ||| ||||| | | | ||| | | || | | | | | || | |||||||||||| ||||| ||||| || |||||||||||||||||||||||||| ||| | ||| | || ||||||||||||| ||||| | ||| |||
--ctgttgtctctgatgtgatatattgtgtgcaaatacctaatggaaacagaaattgttttaagtctttaataa-gacctaaagtcatttcttttttt-tgcagACGTAATATGCTAGAAAAGAAGTTGGCTGATGCTGAAGTCTCTGAGGAAGAACAACACAACTTGCTTCAGCATTTGGAGAAAAAGGAGAGGGAAATCATG
upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G32480.1 (Glycine max), 3'ss of exon 1
agaactcatcaaagatattcatacc-attgggtgattgttgatttgttatgaatttgttacttctaaatgatggtcttttcttacatgtgtgttcatacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
| | || | | | || ||| ||| | || | || || | | | | | ||| | | ||| | |||||||||||| ||||| || || || ||||||||||||||||||||||||||||| || || | || || |||| ||||| ||||| | ||||| |||
atattgtctctgatgtgctgttatagattatgtgcaagaaacttctgcaaatggaaattgctgtaagtttttaataaggttaaacacat-tattcttgcagACGTAATATGCTAGAAAAAAAGTTGGCTGATGCTGAAGTCTCTGAGGAAGAGCAGAACAATTTGCTAAAATATTTTGAGAAAAAGGAGAGGGAATACATG
upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G35110.1 (Glycine max), 3'ss of exon 1
agaactcatcaaagatattcatacc-attgggtgattgttgatttgttatgaatttgttacttctaaatgatggtcttttcttacatgtgtgttcatacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
| || | | | || ||| ||| | || | || || | | | | ||| | | ||| | |||||||||||| ||||| || || || |||||||||||||| |||||||||||||| || || | || || |||| ||||| ||||| | ||||| |||
atgttgtctctgatgtgctgttatagattatgtgcaagaaacttctccagatggaaattgctgtaagtttttaataaggctaaacacat-tattcttgcagACGTAATATGCTAGAAAAAAAGTTGGCTGATGCTGAAGTTTCTGAGGAAGAGCAGAACAATTTGCTTAAATATTTTGAGAAAAAGGAGAGGGAATACATG
upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G14350.3 (Arabidopsis thaliana), 3'ss of exon 2
-------------------------------agaactcatca---aagatattcataccattgggtgattgttgatttgttatgaatttgttacttctaaatgatggtcttt-tcttacatgtgtgtt-catacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
|| |||| | | | | || || | || | ||| | |||| || || | ||||| | | || | || |||||||||| || || |||||||| |||||||||| ||| ||||||||||||||||||||||||||| | || ||| ||||||||| ||||||||| |||||||||
gtatggtttcattacatatttatatgtttcaagttttcatgatgggaaagaactttattcgtgtctttctgctactttcgtgtgaactt-ccgtccatatccttagctctttgtttggtatttacatttcatacagACGCAAAATGCTAGAGAAAAAATTAGCTGCTGCAGAAGTCTCTGAGGAAGAGCAAAATAACTTGCTAAAGGATTTGGAGATGAAGGAAACTGAATATATG
upper sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 2
agaactcatcaaagatattcataccattgggtgattgttgatttgttatgaatttgttactt----ctaaat--gatggtcttttcttacatgtgtgttcatacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
| | ||| || |||| | || | || | |||||||| ||| || | || | | || || | || | ||| ||| |||| || || || || ||||||| ||| ||||||||||||||||||||||| || || || ||| || | |||||||||||||| ||||| |||
----cataatgtggattgacaagaagttggtgtaaaatttctctggaa-aaatttgtttcttggctttagcttggaaagaaaaatactaattgcat-ttgttgcagGCGTGATATGCTGGAAAATAAGTTAGCTGCTGCAGAAGTCTCTGAGGAAGAGCAAAAGAATCTGCTTAAGGATCTAGAGAAGAAGGAAACTGAATACATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgaatttgttacttctaaatgatggtcttttcttacatgtgtgttcatacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
ttcttac putative branch site (score: 2)
aatttgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaactcatcaaagatattcataccattgggtgattgttgatttgttatgaatttgttacttctaaatgatggtcttttcttacatgtgtgttcatacagACGTAATATACTAGAGAAGAAATTAGCTGATGCTGAAGTCTCTGAGGAAGAGCAAAATAACCTACTGAAGCATTTGGAGAAGAAGGAAACAGAATATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- -actcatc
- - - - - aaagata
- - - - - - - - - -catacca
- - - - - - - - - - - - - ttgggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgatgg