Sequence
atgc intronic sequence ATGC exonic sequence...tcctttgaagtttcatctgcattacattatattagatcactagatggcgattgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTCGGAATATGTATATGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGTTTGGTGAAATAGCTATTCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 5
tcctttgaagtttcat--ctgcatt--acattatattagatcactagatggcgattgattcttcagcttatgtgaaattttccttggctatat---tccttgaacagGTGGATGACAAACTCTACATATATTCGGAATATGTATATGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGTTTGGTGAAATAGCTATTCATA
|||||| ||| |||| ||| |||| || | | | | | | || | || | | ||| | ||| | || |||||| ||||| || || || ||||| | ||| ||||||| |||||| || || |||||||||| ||||||||||| ||| |||||||| ||| || | |
------gaagttgcatgatagcatctaggatttcatta-atgagttatttatgtaccacttttgattttcttttttggcttcacttattatttgtgccccaatacagGTTGATGATAAGCTTTATATATACTTGGAGTATGTATCTGGTGGATCTATCCATAAACTTCTACAAGAGTATGGACAGCTTGGTGAACAAGCAATACGCA
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 5
-tcctttgaagtttcatctgcattacattatattagatcactagatggcgat-tgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTCGGAATATGTATATGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGTTTGGTGAAATAGCTATTCATA
||| | | | | || | | | || || || | | || |||| | |||| ||||| || ||| ||||||| ||||| || || |||||||| ||| ||||| | |||||| || ||| |||| ||||| ||||||||||| |||||||||||| || |||| |
tagaattgcattcttttttggacggaa--ggagtacatagttatttttcctcatgcatcttgtgattattcgaaatacatctccatattatattgaaaacagGTTGATGATAAGCTTTACATATACCTGGAGTATGTTTCTGGTGGATCTATACATAAGCTTCTCCAAGAGTATGGTCAGTTTGGTGAACAGGCCATTCGCA
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AC209208.3_FGT001 (Zea mays), 3'ss of exon 4
-tcctttgaagtttcatctgcatt-acattatattagatcactagatggcgattgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTCGGAATATGTATATGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGTTTGGTGAAATAGCTATTCATA
| | | | |||| || | || | ||| | | || || | | | | || || ||| | | || |||| ||||| || || |||||||| ||| ||||| | |||||| || ||| |||| ||||| ||||||||||| |||||||||||| ||| ||| |
tagaatcacattcttttctggatggagggagtacatagttacttt-tccccatgcatcttgtgattcttctaaatgcatctccatatattataca-aaatagGTTGATGATAAGCTTTACATATACCTGGAGTATGTTTCTGGTGGATCTATACATAAGCTTCTCCAAGAGTATGGACAGTTTGGTGAACAAGCCATTTGCA
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G42960.1 (Glycine max), 3'ss of exon 4
tcctttgaagtttcatctgcattacattatattagatcactagatggcga--ttgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTCGGAATATGTATATGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGTTTGGTGAAATAGCTATTCATA
||| | || | | | ||| || || || | || ||||| ||| || || | | || | | ||||| | | | ||||||| ||||||||||| || ||||| | ||| ||||| | |||||| || || ||||| | |||||| ||||||||||| || ||||||| | ||||| ||
--ttttagaaatttgacaatctactaaaatactaaatatttaagagaagatgttgatacttaagattgttttaagtgatttatggctctttataataaacagGTAGATGACAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
upper sequence: Vv02s0025g03850.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 4
------tcctttgaagtttcatctgcattac-attatattagatcactagatggc---gattgattcttcagcttatgtgaaattttccttggctatattccttgaa--cagGTGGATGACAAACTCTACATATATTCGGAATATGTATATGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGTTTGGTGAAATAGCTATTCATA
| || |||| | |||| | || | | | | | | || | | | | ||| | ||| || | | || ||||| |||||||| || || |||||| ||| ||||| | |||||||| || ||||||||||||||||||||||| || |||||||| | || |||| ||
gtaagttttacagatatttcttggacatttctgttctctgatactatcaactgtttcagctcaaccaagtcatgcacatgactagattctttactttcccctcccaattcagGTCGATGACAAGCTGTATATATATCTGGAGTATGTCTCCGGTGGTTCGATCTATAAACTTCTTCAAGAGTATGGACAATTTGGTGAGAATGCCATTCGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcgattgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTCGGAATATGTATATGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGTTTGGTGAAATAGCTATTCATA
gattgat putative branch site (score: 4)
tattcctt putative PPT
ttatgtgaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctttgaagtttcatctgcattacattatattagatcactagatggcgattgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTCGGAATATGTATATGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGTTTGGTGAAATAGCTATTCATA
- - - - - - -catctgc
- - - - - - - - - - - - - - - - - - - - tagatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttatg