Sequence
atgc intronic sequence ATGC exonic sequence...tgtttgatcttggattgacatgattctgtgatgtttttgggtcttggtttagtttgagctaataacatcttatgctttttaaacttcaaaaaataaccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 8
tgtttgatcttggat--tgacatgattctgtgatgtttttgggtcttggtttagtttgagctaataacatcttat----gctttttaaacttcaaaaaataa--ccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
| | || | | |||| | | ||| | || |||||| || | | || | | ||| ||| |||| || | | ||||| ||||| || |||| |||||| |||||||||||||| ||||| ||||||||||| || ||||| || || | |||||||| || || | |||||||
--------cataaatacagctaggatttttcactttttataagtgatggttttaattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 7
--tgtttgatcttggattgaca-----tgattctgtgatgtttttgggtcttg-----gtttagtttgagctaataacatcttatgctt------tttaaacttcaaaaaataaccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
| | |||| || | || | || | | | | |||| | || | |||| | |||| | | ||| || ||| | | || ||||| ||||| || |||| ||||| |||||||||||||| ||||| ||||||||||| || ||||| || || | | |||||
tgcaatgggccttgaataggcagacaataatacagctagggttttcacttttataagtaagtggttttaattaatcaaaacttttgtcaaaatggcttagATTATTCTTTATTTTCAGACAGTTCATCAAAATGGATATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTATGTTG------------------
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 9
tgtttgatcttggattgacatgattctgt-gatgtttttgggtcttggtttagtttgagctaataacatcttatgctttttaaacttcaaa---aaataaccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
| ||| | |||||| |||| | | || || || ||| || | || || | | | | | | || ||||| ||||||||||||||||||||||||||||| ||||||||||| ||||| || |||||||||||||| ||||||||||||| || || ||||||||||
----tattctcttaactacatgacactgttggggattcatagtaatgatttgtttattttttatttttatttgtatgtggtggtggttggggtcatacaagcagACCGTTCAACATAATGCTTATGATCAAGATCCTTATGCAAAGGAATTTGGAATTAAAATCAGTGAAAAGCTAGCTTCTGTTGAAGCACGAATTCTTCCTG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 9
tgtttgatcttggattgacatgattctgt-gatgtttttgggtcttggtttagtttgagctaataacatct-tatgctttt-taaacttcaaaaaataaccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
| | ||| | |||||| |||| | | || || || ||| |||| || | || | |||| | | | | | ||||| ||||||||||||||||||||||||||||| ||||||||||| ||||| || |||||||||||||| ||||||||||||| || || |||||||| |
--tatattctcttaactacatgacactgtcggggcttcatagtaatgattt-gtttattttatttttatttgtatgtggtggtggtgggggtcataccaacagACCGTTCAACATAATGCTTATGATCAAGATCCTTATGCAAAGGAATTTGGAATTAAAATCAGTGAAAAGCTAGCTTCTGTTGAAGCACGAATTCTTCCGG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 8
--tgtttgatcttggat---tgacatgattctgtgatgtttttgggtcttggt--ttagtttgagctaataacatcttatgctttttaaacttcaaaaaataaccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
| | | || | | | || || |||| || | | || | | ||| | | || | || || ||||| ||||| |||| || |||||||||| ||||||||| ||||||||||| |||||||| ||||| |||||||| |||||||||| || || || ||||| ||||
tttatatcttcacaaacaaataatatatatccatgatattctagaagctaaacaataaagttgtgtcatcaaattaacatttcaattttgcttcatg-------cagACCATTCAGCACAATGCTTATGGTCAAGATCCTTATGCAAAGGAATTTGGGATTAAAATTAGTGAAAAGCTAGCTTCTGTAGAAGCGCGAATTCTCCCTG
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G43810.1 (Arabidopsis thaliana), 3'ss of exon 8
tgtttgatcttggattgacatgattctgtgatgtttttgggtcttggtttagtttgagctaataacatcttatgctttttaaacttcaaaaaataac-cagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
| ||| | | ||| | | ||| |||| || |||| || || | || || | || | |||| | |||| || ||||| || || |||||||||||||||||||||||||||||||| || || || || ||||| |||||||||||||| ||||| |||||||| |
-----------gtatttttttagtcatgtatcttatatggttctttgtg-agttagaacttagaagtgaggattaatcttgttgtcaaaaatgttttatagACTGTCCAACACAACGCATATGATCAAGATCCATATGCAAAGGAGTTTGGCATGAACATAAGCGAAAAGTTAGCTTCTGTTGAAGCTCGTATTCTTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtttagtttgagctaataacatcttatgctttttaaacttcaaaaaataaccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
taataac putative branch site (score: 1)
ttatgctttttaaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttgatcttggattgacatgattctgtgatgtttttgggtcttggtttagtttgagctaataacatcttatgctttttaaacttcaaaaaataaccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG
- - - - - tggattg
- - - - - - - - - catgatt
- - - - - - - - - - - - - - - - - ttttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaca