Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcctgatgacatgctggttgcttacactagatgttttctttttatcacagcctttggctttgcatgtaaaattcagagccttgttctgatggccttattctctgtgtagGTTCTAAGTATAGCCTGCTGTGTATTTTATAGTCATTGTGGTAATCGTGCTATTTTGAGACAAAGACCATTTGAGAGAAGGAATTCTGGTTGGTTTTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------gtaagtcctg---atgacatgctggttgcttacactagatgttttctttttatcacagcctttggctttgcatgtaaaattcagagccttgttctgatggccttattctctgt-------gtagGTTCTAAGTATAGCCTGCTGTGTATTTTATAGTCATTGTGGTAATCGTGCTATTTTGAGACAAAGACCATTTGAGAGAAGGAATTCTGGTTGGTTTTCTT
|| | || | | || | | | |||| | | | | | | | | | || | ||| | | | || || | |||||||||||| || || ||||| || || | || ||||||||||||||||||||||||||||| ||||| || || ||| | |||||| |||| |||| |||||| ||||||||||
gtaagtttggaagatgattgtttgtgtacttagaagatgcaatattgttctgatggtgttttttgtaaaataaataatagGTACTTA-GCGTGGCATGCTGTGTATTTTATAGTCATTG---TGGTACTTAGAAGATGCAATATTGTTCTGATGGTGTTTTTTGTAAAATAAATAATAGGTACTTAGCGTGGCATGCTGTGTATTTTATAGTCATTGTGGTAACCGTGCCATGTTAAGAGAGAGACCACTTGACCGAAGAAATTCTAACTGGTTTTCTT
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------gtaagtcctg---atgacatgctggttgcttacactagatgttttctttttatcacagcctttggctttgcatgtaaaattcagagccttgttctgatggccttattctctgt-------gtagGTTCTAAGTATAGCCTGCTGTGTATTTTATAGTCATTGTGGTAATCGTGCTATTTTGAGACAAAGACCATTTGAGAGAAGGAATTCTGGTTGGTTTTCTT
|| | || | | || | | | |||| | | | | | | | | | || | ||| | | | || || | |||||||||||| || || ||||| || || | || ||||||||||||||||||||||||||||| ||||| || || ||| | |||||| |||| |||| |||||| ||||||||||
gtaagtttggaagatgattgtttgtgtacttagaagatgcaatattgttctgatggtgttttttgtaaaataaataatagGTACTTA-GCGTGGCATGCTGTGTATTTTATAGTCATTG---TGGTACTTAGAAGATGCAATATTGTTCTGATGGTGTTTTTTGTAAAATAAATAATAGGTACTTAGCGTGGCATGCTGTGTATTTTATAGTCATTGTGGTAACCGTGCCATGTTAAGAGAGAGACCACTTGACCGAAGAAATTCTAACTGGTTTTCTT
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 2
gtaagtcctgatgacatgctggttgcttacactagatgttttctttttatcacagcctttggctttgcatgtaaaattcagagccttgttctgatggccttattctctgtgtagGTTCTAAGTATAGCCTGCTGTGTATTTTATAGTCATTGTGGTAATCGTGCTATTTTGAGACAAAGACCATTTGAGAGAAGGAATTCTGGTTGGTTTTCTT
| ||| | | |||| ||| | | | | | | | ||| | | | | | || || | | | | | | ||||| || || | || ||||||||||||||||||||||||||||| ||||| || || ||| | |||||| |||| |||| |||||| ||||||||||
-----------------gtaagtttggaagat--gatggtttgtgtcc-ttagaagatgcaacattgt-tctga----tggtgtttttttttttttttttaaataaata-atagGTACTTAGCGTGGCATGCTGTGTATTTTATAGTCATTGTGGTAACCGTGCCATGTTAAGAGAGAGACCACTTGACCGAAGAAATTCTAACTGGTTTTCTT
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtcctgatgacatgctggttgcttacactagatgttttctttttatcacagcctttggctttgca-tgtaaaattcagagccttgttctgatggccttattctctgtgtagGTTCTAAGTATAGCCTGCTGTGTATTTTATAGTCATTGTGGTAATCGTGCTATTTTGAGACAAAGACCATTTGAGAGAAGGAATTCTGGTTGGTTTTCTT
|||||| | | | ||| || ||| || | | ||| | | | || || | | | | || | | |||| | ||| | || || || ||||||| || || || |||||| |||||||||| |||||||||||||| ||| || |||| |||| |||| ||| ||| | || | | |||||||| |
gtaagttc--accat-tgccagtcttgcacattaaagccacttatttgcttaaaatattgtctttcgtagtttcgtataaaaattattgtcttcatgtcttt--catcgatgcagGTTCTTAGCATGGCTTGCTGTATATTTTATAGCCATTGTGGTAATCGAGCTGTTCTGAGGCAAAAACCACTTGGAAGACAGTATACAAGCTGGTTTTCGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggctttgcatgtaaaattcagagccttgttctgatggccttattctctgtgtagGTTCTAAGTATAGCCTGCTGTGTATTTTATAGTCATTGTGGTAATCGTGCTATTTTGAGACAAAGACCATTTGAGAGAAGGAATTCTGGTTGGTTTTCTT
ttctgat putative branch site (score: 3)
ccttattctct putative PPT
atgtaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcctgatgacatgctggttgcttacactagatgttttctttttatcacagcctttggctttgcatgtaaaattcagagccttgttctgatggccttattctctgtgtagGTTCTAAGTATAGCCTGCTGTGTATTTTATAGTCATTGTGGTAATCGTGCTATTTTGAGACAAAGACCATTTGAGAGAAGGAATTCTGGTTGGTTTTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA