Sequence
atgc intronic sequence ATGC exonic sequencegtcagttttcatattttgcatgggctcacatcttacaaaaaattagcttgtttggtaagtctaaaagtatataatatgatataatattaattactcatcttataatagtaattaatttgcatggaacagGTCAGAGGGGAAGTGACTTATAATGGCCATAGGCTCAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 4
------gtcagttttcatattttgc--atgggctcacatcttacaaaaaattagcttgtt-tggtaagtctaaaagtatataatatgatataatattaattactcatcttataatagtaattaatttgcatggaacagGTCAGAGGGGAAGTGACTTATAATGGCCATAGGCTCAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA
|| ||||| | | | | | | | |||| | | | || | | | || || | | || || | | | | | | | | ||||| ||| ||| ||||||| | ||| ||| | || || ||||| |||| || ||||| ||||||||| ||||| || |||||||||||||||||||||||||| | |||||||
gtatgctccaaccccatcattttactgagaaaattattcttcatacaaaagaaattaataatgatgatgatgaagaataatgaaaaatgatgatgaacaagagttaattaaaataaataattggttttgatgaaacagGTAAAAGGAGAAATCACATACAATGGGCATAAACTTAATGAGTTTGTGCCAAGAAAGACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 3
gtcagttttcatattttgcatgggctcacatcttacaaaaaattagcttgtttggta---agtctaaaagtatataatatgatataatattaattactcatctta--taatagtaattaa-tttgcatggaacagGTCAGAGGGGAAGTGACTTATAATGGCCATAGGCTCAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA
|| |||| | | | | | | | | | | | |||| ||| | || ||| | | || || |||| ||| ||||||| | || ||| | | || || || || | || || || ||||| || ||||| || || |||||||||||||||||||| || ||||||||||
-----------------------------------aaattaattgctctttctaatttctaattttctatcaagtggagttgaataacattggtgacgcataagagctgtaggtgtttgggtttgaatgaaacagGTTAATGGAGAAATCTCCTACAACGGGCACAAGCCTAACGAGTTTGTCCCTAGAAAGACTTCAGCCTACATTAGCCAAAATGATGTGCATATAGGAGAAA
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 3
------gtcagttttcatattttgc---atgggctcacatcttacaaaaaattagcttgtttggtaagtctaaaagtatataatatgatataatattaattactcatc--ttataatag-taattaatttgcatggaacagGTCAGAGGGGAAGTGACTTATAATGGCCATAGGCTCAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA
|| ||||| | | | | | | | | ||| | | | ||| | | | |||| | || || | | | | ||| |||| | | | ||| ||| ||||||| | ||| ||| | || || ||||| |||| || ||||| |||| ||| || || || |||||||||||||||||||||||||| | |||||||
gtatgctccaaccccatcattttacttaacaaaattattcttcatacataataaattaat--aataatgttgataaagaataacgataaatgatgatgaacaagagttaattaaaataaatgactggttttgatgaaacagGTAAAAGGAGAAATCACATACAATGGACATAAACTTAATGAGTTTGAGCCTAGAAAAACTTCAGCATACATTAGCCAAAATGATGTTCATGTTGGAGAAA
upper sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G16340.1 (Arabidopsis thaliana), 3'ss of exon 3
gtcagttttcatattttgcatgggctcacatcttacaaaaaattagcttgtttggtaagtctaaaagtatataatatgatataatattaattactcatcttataatagtaa----ttaatttgc--atggaa-----cagGTCAGAGGGGAAGTGACTTATAATGGCCATAGGCTCAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA
|| || | || | | |||||| |||| ||||| ||| || || | | |||| || ||| || ||||| | |||| ||| || || ||||| ||| | | | || |||||||||||||| ||||| |||||||| |||||||| |||||||| | |||| |
----------------------------------------------------------gttaaataatacacattatgat----tattgattacacattctagaaaaaaagagacttaaattattaatgaaaatggacagGTGACAGGGAGAGTAACATACAATGGGCATGGATTGGAAGAGTTTGTGCCACAGAAAACATCAGCATACATAAGCCAAAACGATGTTCATGTTGGAGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgatataatattaattactcatcttataatagtaattaatttgcatggaacagGTCAGAGGGGAAGTGACTTATAATGGCCATAGGCTCAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA
tataatattaattact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagttttcatattttgcatgggctcacatcttacaaaaaattagcttgtttggtaagtctaaaagtatataatatgatataatattaattactcatcttataatagtaattaatttgcatggaacagGTCAGAGGGGAAGTGACTTATAATGGCCATAGGCTCAATGAATTTGTGCCACAGAAGACATCGGCATACATTAGCCAAAATGATGTTCACATAGGAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA