Sequence
atgc intronic sequence ATGC exonic sequencegtattcacatgatctcatttgctgtttttgttttaggttgtcttctttataaaatgagtgatgatttatagtaaccatttctgtgaaaactcaattaacagAACGTAGTCCGCCAATTGAGGAAGTTATTCAATCTGGGGTGGTTCCTCGCTTTGTGGAATTTCTTGTTAGGGAGGATTTCCCACAGCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 2
------gtattcacatgatctcatttgctgtttttgttttag-gttgtcttctttataaaatgagtgatgatttatagtaaccatttctgtgaaaact-caattaacagAACGTAGTCCGCCAATTGAGGAAGTTATTCAATCTGGGGTGGTTCCTCGCTTTGTGGAATTTCTTGTTAGGGAGGATTTCCCACAGCTTCAG
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gtaactctaactgtggattttgatttgatgttattgatgagttgttgtgttgttctgtttctgtatg-tgttaaatgttgttttgttttgtttgatttatgttccgtagAGCGCAGTCCTCCAATTGAGGAAGTTATTCAAGCTGGGGTTGTGCCTCGATTTGTGGAGTTTCTTGTTAGGGAGGATTTCCCTCAACTTCAG
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G15480.1 (Glycine max), 3'ss of exon 2
gtattcacatgatctcatttgctgtttttgttt-taggttgtcttctttataaaatgagtgatgatttatagtaaccatttctgtgaaaactcaattaacagAACGTAGTCCGCCAATTGAGGAAGTTATTCAATCTGGGGTGGTTCCTCGCTTTGTGGAATTTCTTGTTAGGGAGGATTTCCCACAGCTTCAG
||| || | | ||||| || | || || | | |||| | ||| | | ||| | || || | ||| | | | ||| || ||||| || |||||||||||||||||| ||||||| || ||||| |||||||| |||||||||||||||||||| || || || |||
gtaactggat--tttgatttgatgatgttattgatggattgttctttttctg---tatgtgctaat-----gtcgtcgttttgtttgatttatgttccgtagAGCGCAGTCCTCCGATTGAGGAAGTTATTCAAGCTGGGGTTGTGCCTCGGTTTGTGGAGTTTCTTGTTAGGGAGGATTTTCCTCAACTACAG
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G37180.1 (Glycine max), 3'ss of exon 3
-------------------gtattcacatgatctcatttgctgtttttgttttagg------ttgtcttctttataaaatgagtgatgatttatagtaaccatttctgtgaaaactcaattaacagAACGTAGTCCGCCAATTGAGGAAGTTATTCAATCTGGGGTGGTTCCTCGCTTTGTGGAATTTCTTGTTAGGGAGGATTTCCCACAGCTTCAG
| | || |||| | || || | |||| | | | || || | || ||| |||| | || |||| | | | | | | | |||||| || || || |||||||||||||||||| |||| || ||||| || ||||| || ||||||||||| ||||||||||| || ||||||
gtaactgatttctgaataatcaataacgtgattcaaattctaattgctattttctgaatcccctatgttgcttggattctgtgtgttgatg-aggttattgattttttttta---ttattctatagAACGGAGCCCTCCGATTGAGGAAGTTATTCAAGCTGGTGTTGTTCCACGTTTTGTTGAGTTTCTTGTTAGAGAGGATTTCCCTCAACTTCAG
upper sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 2
---------------------------gtattcacatgatctc-atttgctgtttttgttttaggttgtcttctttataaaatgagtgatgatttatagtaaccatttctgtgaaaactcaattaacagAACGTAGTCCGCCAATTGAGGAAGTTATTCAATCTGGGGTGGTTCCTCGCTTTGTGGAATTTCTTGTTAGGGAGGATTTCCCACAGCTTCAG
| | |||| || | ||||| ||||| | | | || || | | ||| |||| || |||| | | || | | |||||| || || || |||||||||||||||||| |||| || ||||| || ||||| || ||||||||||| ||||||||||| || ||||||
gtaactgtgatttctgaataaccaataatgtgattctgatttctaattgctattttttgaatcccatatgttgcttcgattctccgtgttgatgcg-gttattgattttttt-----ttctttctatagAACGGAGCCCTCCGATTGAGGAAGTTATTCAAGCTGGTGTTGTTCCACGTTTTGTTGAGTTTCTTGTTAGAGAGGATTTCCCTCAACTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttataaaatgagtgatgatttatagtaaccatttctgtgaaaactcaattaacagAACGTAGTCCGCCAATTGAGGAAGTTATTCAATCTGGGGTGGTTCCTCGCTTTGTGGAATTTCTTGTTAGGGAGGATTTCCCACAGCTTCAG
tagtaac putative branch site (score: 1)
atgatttatagtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattcacatgatctcatttgctgtttttgttttaggttgtcttctttataaaatgagtgatgatttatagtaaccatttctgtgaaaactcaattaacagAACGTAGTCCGCCAATTGAGGAAGTTATTCAATCTGGGGTGGTTCCTCGCTTTGTGGAATTTCTTGTTAGGGAGGATTTCCCACAGCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT