Sequence
atgc intronic sequence ATGC exonic sequence...aagcttcaaaagtacacattaagtggcttatctattattttggtgagccttttcttttgatagtgtgattacattaaataattacatttacattttgcagTGCCTTGATGGACTGTGTTGGATGTGAGAAGTGCCGGCTTTGGGGAAAGCTTCAGATTCTTGGTCTTGGCACTGCTTTAAAAATCCTCTTCTCTGTTGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g00090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g52340.2 (Oryza sativa), 3'ss of exon 6
aagcttcaaaagtacacattaagtggcttatctattattttggtgagccttttcttttgatagtgtgatt--acattaaataattacatttacatttt-gcagTGCCTTGATGGACTGTGTTGGATGTGAGAAGTGCCGGCTTTGGGGAAAGCTTCAGATTCTTGGTCTTGGCACTGCTTTAAAAATCCTCTTCTCTGTTGAT
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-----------gtgtgtgttca-tg--ttattcatgttttcagt---tcataatatgcacttgtctgattcaaaatcatatccttggaatgttattttcacagTGCAATTATGGATTGTGTTGGATGTGAGAAGTGTCGATTATGGGGAAAGCTCCAAGTTCTTGGTCTCGGTACTGCATTGAAGATTCTTTTCTCTGTTGAT
upper sequence: Vv19s0027g00090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G521844_T01 (Zea mays), 3'ss of exon 7
aagcttcaaaagtacacattaagtggcttatctattattttggtgagccttttcttttgatagtgtgattacattaaata-attacatttacattttgcagTGCCTTGATGGACTGTGTTGGATGTGAGAAGTGCCGGCTTTGGGGAAAGCTTCAGATTCTTGGTCTTGGCACTGCTTTAAAAATCCTCTTCTCTGTTGAT
|| | | || | | | ||| | || | | | ||| | | | ||| | | |||||| | | | ||||| | ||||||||||||||||| ||||||||||| || ||||||||||| || ||||||| ||||| |||||| | ||||| || ||||| ||||||
-----------gtttgtgacatatttctggtgttcttatttcataaga---tacatatgaaccacttgtatccttacccatgtaacattttcttgat-tagTGCAATTATGGACTGTGTTGGATGCGAGAAGTGCCGACTGTGGGGAAAGCTCCAAGTTCTTGGCCTTGGAACTGCTCTGAAAATTCTTTTCTCCGTTGAT
upper sequence: Vv19s0027g00090.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G108115_T01 (Zea mays), 3'ss of exon 7
aagcttcaaaagtacacattaagtggcttatctattattttggtgagccttttcttttgatagtgtgattacattaaataattacatttacattttgcagTGCCTTGATGGACTGTGTTGGATGTGAGAAGTGCCGGCTTTGGGGAAAGCTTCAGATTCTTGGTCTTGGCACTGCTTTAAAAATCCTCTTCTCTGTTGAT
| || | || | || | | | |||| | || | | ||| | | | | |||||| |||| ||||| | ||||||||||||||||| ||||||||||| || ||||||||||| || ||| ||||||||| ||||| | ||||| || ||||||||||||
--gtttgtgacatatttcctgtgttctcaacttctcatttcattagatgcattatg--aaccacttgaatccttacccatgtaacattt-tatttattagTGCAATTATGGACTGTGTTGGATGCGAGAAGTGCCGACTGTGGGGAAAGCTCCAAGTTCATGGTCTTGGAACTGCACTGAAAATTCTTTTCTCTGTTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agccttttcttttgatagtgtgattacattaaataattacatttacattttgcagTGCCTTGATGGACTGTGTTGGATGTGAGAAGTGCCGGCTTTGGGGAAAGCTTCAGATTCTTGGTCTTGGCACTGCTTTAAAAATCCTCTTCTCTGTTGAT
ttttgat putative branch site (score: 4)
tgattacattaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagcttcaaaagtacacattaagtggcttatctattattttggtgagccttttcttttgatagtgtgattacattaaataattacatttacattttgcagTGCCTTGATGGACTGTGTTGGATGTGAGAAGTGCCGGCTTTGGGGAAAGCTTCAGATTCTTGGTCTTGGCACTGCTTTAAAAATCCTCTTCTCTGTTGAT
- - - -aaaagta
- - - - - - - - - - - -tggctta
- - - - - - - - - - - - - - - - - - - - tggtgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataat