Sequence
atgc intronic sequence ATGC exonic sequence...aagtgaagaagcagaaatcaatttttattttgtgatatattttgtagtatcctgttttttcacatcaaaaccccctttatcttcttgatcatttgggcagGAAAATGTGCTGGCTGAATCAAGGATGATGATTCCTGATTGTCGCAAGCGCCTGGAGGCCTCACTAGCTGATCTAAAAGGAACTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g01180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G35770.1 (Glycine max), 3'ss of exon 2
-----------------------------aagtgaagaagcagaaatcaatttttattttgtgatatattttgt------agtatcctgttttttcacatcaaaaccccctttatcttcttgatcatttgggcagGAAAATGTGCTGGCTGAATCAAGGATGATGATTCCTGATTGTCGCAAGCGCCTGGAGGCCTCACTAGCTGATCTAAAAGGAACTTTG
| |||| || | | | | || | | | | | ||| | || || ||| | ||| | ||| ||||| | |||||||||||| |||| || || ||||||||||||||||| || ||||||||||| |||||| | | || || | ||||||| |||
gtatatcttctccctctgcatttgctttcaggtgatttgccacatcgggttatgtgttatttacttttctctgttaaaaaaaaattatgcaatttgatggtaaattttgttgagctgatttg--cattttgacagGAAAATGTGTTGGCAGAGTCTAGGATGATGATTCCTGACTGCCGCAAGCGCCTTGAGGCCGCTTTGGCAGACTTGAAAGGAATATTG
upper sequence: Vv15s0021g01180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G34820.1 (Glycine max), 3'ss of exon 2
aagtgaagaagcagaaatcaatttttattttgtgatatattttgtagtatcctgttttttcacatcaaaaccccctttatcttcttgatca-tttgggcagGAAAATGTGCTGGCTGAATCAAGGATGATGATTCCTGATTGTCGCAAGCGCCTGGAGGCCTCACTAGCTGATCTAAAAGGAACTTTG
| || | ||| | | || ||| | || ||| | || || | | | | | ||| | | ||| | ||||||||||| ||||||| || ||||||||||||||||| || ||||||||||| |||||| | | || || | |||||| |||
----------------gtatatctccattctttaat---cactgtgctttcaggttatctcttattta---cttttctctgttcaaaacaaattttgacagGAAAATGTCTTGGCTGAGTCTAGGATGATGATTCCTGACTGCCGCAAGCGCCTTGAGGCCGCTTTGGCAGACTTGAAAGGATTATTG
upper sequence: Vv15s0021g01180.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G30410.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------aagtgaagaagcagaaatcaatttttattttgtgatatattttgtagtatcctgttttttcacatcaaaaccccctttatctt--cttgatcatttgg----gcagGAAAATGTGCTGGCTGAATCAAGGATGATGATTCCTGATTGTCGCAAGCGCCTGGAGGCCTCACTAGCTGATCTAAAAGGAACTTTG
| | | | | | | | ||| || || | | || | | | | |||| | | | || ||| || | || || ||| ||||||||||||| ||| ||| || |||||||||||||| ||||| | ||| || || ||| | || | ||||| || || ||||||
gtacagatttcattgtttatctctctgtattcgaagattcggagcccgtctttgttc-gtcaga-atctagaaatgctgtgttgtgctgtgtttagacttggtttttcctaatctgtgtatgtggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtatcctgttttttcacatcaaaaccccctttatcttcttgatcatttgggcagGAAAATGTGCTGGCTGAATCAAGGATGATGATTCCTGATTGTCGCAAGCGCCTGGAGGCCTCACTAGCTGATCTAAAAGGAACTTTG
tcttgat putative branch site (score: 4)
tgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtgaagaagcagaaatcaatttttattttgtgatatattttgtagtatcctgttttttcacatcaaaaccccctttatcttcttgatcatttgggcagGAAAATGTGCTGGCTGAATCAAGGATGATGATTCCTGATTGTCGCAAGCGCCTGGAGGCCTCACTAGCTGATCTAAAAGGAACTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - gaagaag
- - - - - - - aaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - cctgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcaaaa