Sequence
atgc intronic sequence ATGC exonic sequencegttccttataactcacattattgagaattaaatttggtgctggctgttatcaaaatttcgtacttgcttaccttgtatgactaattcagGTTGCTCCTACATTGGTTCCTCTTCTTAAATTTTATTTTCACGAGGAAGTTAGGAAGGCTGCTGTTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os07g38760.1 (Oryza sativa), 3'ss of exon 8
gttccttataac-tcacattattgagaattaaatttggtgctggctgttatcaaaatttcgtacttgcttaccttgtatgactaattcagGTTGCTCCTACATTGGTTCCTCTTCTTAAATTTTATTTTCACGAGGAAGTTAGGAAGGCTGCTGTTTCAG
||| ||| | || | || | | ||||| | || | || | | ||| | | | || |||||||||||||||||||||| || ||||||||||| ||||| |||||||| |||| ||||||||| |||
gtttgatatcataccagcatgttaaatgtctaatttctcaattgccact--cagtgtcatatg-ttggtggtcaaattccacg----tagGTTGCTCCTACATTGGTTCCACTCCTTAAATTTTACTTTCATGAGGAAGTGAGGAGAGCTGCTGTTGCAG
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g49420.2 (Oryza sativa), 3'ss of exon 7
gttccttataactcacattattgagaattaaatttg-----gtgctggctgttatcaaaatttcgtacttgcttaccttgtatgactaattcagGTTGCTCCTACATTGGTTCCTCTTCTTAAATTTTATTTTCACGAGGAAGTTAGGAAGGCTGCTGTTTCAG
|||| | || ||| ||| | || || | | || | | || | || || |||||| || || |||||||| |||| |||||||||| || ||||| |||||||| || |||||||||||||| || |||||||
----gttatgttacgattttttgtgaactctatgtgtacacgcacgcgcctatgtgaagagctccagctga---accttgaatctgta---cagGTTGCAACTACTCTGGTTCCTCTCCTCAAATTCTATTTTCATGAAGAAGTTAGGAAGGCAGCCGTTTCAG
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 7
gtt-ccttataactc--acattattgagaattaaatttggtgctggctgttatcaaaatttcgtacttgcttaccttgtatgactaattcagGTTGCTCCTACATTGGTTCCTCTTCTTAAATTTTATTTTCACGAGGAAGTTAGGAAGGCTGCTGTTTCAG
|| | | | | || | | || ||| || | | | || ||| | | ||||| | | | ||||| | |||| | || ||||| |||| || |||||||| ||||||||||||||||| ||| ||||||
gtcatatcactatttcaaccccttctcctttcttgttgggttctagtt-tcatgaaagagctacagcta--tacctgg----atctgtacagGTCACGACTACGCTTGTACCTCTCATTAAGTTCTATTTTCATGAGGAAGTTAGGAAGGCAGCTATTTCAG
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G04400.2 (Glycine max), 3'ss of exon 8
gttccttataactcacattattgagaattaaatttggtgctggctgttatcaaaatttcgtacttgcttaccttgtatgactaattcagGTTGCTCCTACATTGGTTCCTCTTCTTAAATTTTATTTTCACGAGGAAGTTAGGAAGGCTGCTGTTTCAG
| || ||||| ||| ||| | | || || |||| || | ||| || ||| | || | |||||||| |||||||||||||||||||||||||| || ||||| ||||||||||||||||| |||||||
----------gttgactttattttatattttggttg-catttccagtccgtaatattt--tattggctaactatgtggaatta-tctagGTTGCTTTCACATTGGTTCCTCTTCTTAAATTTTACTTCCACGAAGAAGTTAGGAAGGCTGCAGTTTCAG
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G29010.1 (Glycine max), 3'ss of exon 8
gttccttataactcacattattgagaatta-aatttggtgctggctgtta--tcaaaatttcgtacttgcttaccttgtatgactaattcagGTTGCTCCTACATTGGTTCCTCTTCTTAAATTTTATTTTCACGAGGAAGTTAGGAAGGCTGCTGTTTCAG
|||| ||| | |||| || | | || ||| | || ||| || ||| || | || |||||||| |||||||||||||||||||||||||| || || || |||||||||||||| || |||||||
-------------------gttgacttttatattttgttggcattttccagtccagaatattatataggctaactttg---gaattatctagGTTGCTTTCACATTGGTTCCTCTTCTTAAATTTTACTTCCATGAAGAAGTTAGGAAGGCAGCAGTTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtgctggctgttatcaaaatttcgtacttgcttaccttgtatgactaattcagGTTGCTCCTACATTGGTTCCTCTTCTTAAATTTTATTTTCACGAGGAAGTTAGGAAGGCTGCTGTTTCAG
gactaat putative branch site (score: 2)
tgttatcaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttccttataactcacattattgagaattaaatttggtgctggctgttatcaaaatttcgtacttgcttaccttgtatgactaattcagGTTGCTCCTACATTGGTTCCTCTTCTTAAATTTTATTTTCACGAGGAAGTTAGGAAGGCTGCTGTTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT