Sequence
atgc intronic sequence ATGC exonic sequencegtgcttactttcccttcatctttttctcattttgttttattgtattgtcaatattcttatttatgtaatcgcttattagatggtgcatttgttgatgatctcttttgcagACAAAACTCAAGAGTGCTATCCAGTTGCAAGATTTGTTGGATGCCACACGGATGCTTGTACCACGCACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 14
gtgcttactttcccttcatctttttctcattttgttttattgtattgtcaatattcttatttatgtaatcgcttattagatggtgcatttgttgatgatctcttttgcagACAAAACTCAAGAGTGCTATCCAGTTGCAAGATTTGTTGGATGCCACACGGATGCTTGTACCACGCACAAG
| | | | ||| | |||||| ||| | | | || | | | | | | || | || | ||||| | | ||| |||||||||||| || |||||| | ||| |||||||| |||| ||||||||||||||||| || || ||||| ||
------agACAAAACTTAAAAGTCCTTCAGTAGTGTTTATTA-ATTTTTATTTGAGCTACTGAAATCTTAATCTTCTG--TGATTGATCTATTGATCTTATGTTT-GCAGACAAAACTTAAAAGTGCTGTTCAGCTGCAAGATCTGTTAGATGCCACACGGATGCTGGTGCCTCGCACTAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 11
gtgcttactttcccttcatctttttctcattttgttttattgtattgtcaatattcttatttatgtaatcgcttattagatggtgcatttgttgatgatctcttttgcagACAAAACTCAAGAGTGCTATCCAGTTGCAAGATTTGTTGGATGCCACACGGATGCTTGTACCACGCACAAG
| ||| || | || || || ||| | | | | | || | || | ||||| | | | | || | ||| | | | ||| |||||||||||| || |||||| | ||| |||||||| |||| ||||||||| ||||||| || || ||||| ||
--agACAAAACTTAAAAATCCTTCAGTAATGTTTATTAATTTTTATTTGAGC-TACTGAATTCT-TAATCTTCTGT-----GATTGATCTATTGGTCTTGTGTTT-GCAGACAAAACTTAAAAGTGCTGTTCAGCTGCAAGATCTGTTAGATGCCACAAGGATGCTGGTGCCTCGCACTAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 13
gtgcttactttcccttcatctttttctcat-tttgttttattgtattgtcaatattcttatttatgtaatcgcttattagatggtgcatttgttgatgatctctt--ttgcagACAAAACTCAAGAGTGCTATCCAGTTGCAAGATTTGTTGGATGCCACACGGATGCTTGTACCACGCACAAG
||| | | | | | | ||| | | || ||||| | || |||| || |||| || | | | ||| | ||| | || ||||||| || |||||||||||||| || |||||| | || | ||||||||||| ||||||||||| ||||| || || || || ||
gtgat-attattttctagtgtttgtgtaatatttgtctacttttatt--tgatcttctggattttttttttttttacctcttt-tgcttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATTTGTTAGATGCCACACGAATGCTAGTTCCTCGTACCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 14
gtgcttactttcccttcatctttttctcattttgttttattgtattgtcaatattcttatttatgtaatcgcttattagatggtgcatttgttgatgatctcttttgcagACAAAACTCAAGAGTGCTATCCAGTTGCAAGATTTGTTGGATGCCACACGGATGCTTGTACCACGCACAAG
| | | || ||| |||| ||| || | || || || || | || | | ||||||||||| ||||| |||||||| |||||||||||||| | || ||||||||| | ||| | || || || |||||
----------------------gtgagaggctcaagtctttatatcttcaa-gttcagcttgtcttgattaatttgcttatactgtgtcaatttct--ccccttttgcagACCAAACTTAAGAGTGCCGTCCAGTTGCAAGATCTATTAGATGCCACAAGAATGTTAGTTCCCCGTACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttatttatgtaatcgcttattagatggtgcatttgttgatgatctcttttgcagACAAAACTCAAGAGTGCTATCCAGTTGCAAGATTTGTTGGATGCCACACGGATGCTTGTACCACGCACAAG
tgttgat putative branch site (score: 4)
tctcttttgc putative PPT
ttatgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcttactttcccttcatctttttctcattttgttttattgtattgtcaatattcttatttatgtaatcgcttattagatggtgcatttgttgatgatctcttttgcagACAAAACTCAAGAGTGCTATCCAGTTGCAAGATTTGTTGGATGCCACACGGATGCTTGTACCACGCACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA