Sequence
atgc intronic sequence ATGC exonic sequence...gtaaatttgataatattatctaaacatgatttatatctcgaggtgttttacttgaaaatgcagcttattgttatacggtttctctgtaccacatttgtagCTATTGAAGAAAACTTCTGCTCAGCAAATATCAAAAACCGCATCTCCTGTGGAACAATTTCATCATTCATTAGAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G05430.1 (Glycine max), 3'ss of exon 1
-------gtaaatttgataatattatctaaacatgatttatatctcgaggtgttttacttgaaaatgcagcttattgttatacggtttctctgtaccacatttgtagCTATTGAAGAAAACTTCTGCTCAGCAAATATCAAAAACCGCATCTCCTGTGGAACAATTTCATCATTCATTAGAACAG
||||||| ||| | || | |||| | | | ||| ||| |||||||||||||||||||||||||||| |||||||||||||||||| ||||||| |||||||| | ||||||||||||||||| || ||||||||||| || | || |||| || ||
tgctgacttaaatttcatagtttttagtg--tgagattcgagcat---gatttttatcttcgaaatgcagcttattgttatacggtttct--gtaccacatttgtagCTACTGAAGAAGACTTCTGCGCGTCAAATATCAAAAACCGCTTCACCTGTGGAACATTTCCGGCAGGCATTGCAAAAG
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G43540.1 (Glycine max), 3'ss of exon 1
-gtaaatttgataatatta--tctaaacatgatttatatctcgaggtgttttacttgaaaatgcagcttattgttatacggtttctctgtaccacatttgtagCTATTGAAGAAAACTTCTGCTCAGCAAATATCAAAAACCGCATCTCCTGTGGAACAATTTCATCATTCATTAGAACAG
| | || | | || | | | ||| | | | ||| || | || |||||||||||||||||||||||||||| |||||||||||||||||| ||||||| |||||||| | ||||||||||||||||| || ||||| ||||| |||| || ||| || ||
tgctgacttaaatgtcgtagtttttagtgtgagattcaag-catggttttatctttcgaaatgcagcttattgttatacggtttct--gtaccacatttgtagCTACTGAAGAAGACTTCTGCGCGTCAAATATCAAAAACCGCTTCACCTGTCGAACATTTTCGGCAGGTATTGCAAAAG
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G43540.2 (Glycine max), 3'ss of exon 1
------------------------------------gtaaatttgataatatta--tctaaacatgatttatatctcgaggtgttttacttgaaaatgcagcttattgttatacggtttctctgtaccacatttgtagCTATTGAAGAAAACTTCTGCTCAGCAAATATCAAAAACCGCATCTCCTGTGGAACAATTTCATCATTCATTAGAACAG
| | || | | || | | | ||| | | | ||| || | || |||||||||||||||||||||||||||| |||||||||||||||||| ||||||| |||||||| | ||||||||||||||||| || ||||| ||||| |||| ||
tggcactcgtaattactaattgctccttgcaatgctgctgacttaaatgtcgtagtttttagtgtgagattcaag-catggttttatctttcgaaatgcagCTTATTGTTATACGGTTTCT--GTACCACATTTGTAGCTACTGAAGAAGACTTCTGCGCGTCAAATATCAAAAACCGCTTCACCTGTCGAACATTTTCGGCA-------------
upper sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G32950.1 (Arabidopsis thaliana), 3'ss of exon 1
----gtaaatttgataatattatctaaacatgatt-tatatctcgaggtgttttacttgaaaatgcagcttattgttatacggtttctctgtaccacatttgtagCTATTGAAGAAAACTTCTGCTCAGCAAATATCAAAAACCGCATCTCCTGTGGAACAATTTCATCATTCATTAGAACAG
||||| | || || | || ||||| | ||| | | | ||| | ||||||||||||| ||| | | | |||| || | |||||||||||||||||||||| |||| ||| | |||||||| ||||| || |||| || |||| | || || || |
acagctaaatagaagcatgtt-tataggaatgatagtgtat-tgaaactatttatcactggaatgcagcttatt---atatgacgtttatgtatcaattgtgtagCTATTGAAGAAAACTTCAGCTCGGCATGTGTCAAAAACTGCATCGCCCTTGGATCAGTTTCGGGAAGCACTACAAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttacttgaaaatgcagcttattgttatacggtttctctgtaccacatttgtagCTATTGAAGAAAACTTCTGCTCAGCAAATATCAAAAACCGCATCTCCTGTGGAACAATTTCATCATTCATTAGAACAG
ttattgttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatttgataatattatctaaacatgatttatatctcgaggtgttttacttgaaaatgcagcttattgttatacggtttctctgtaccacatttgtagCTATTGAAGAAAACTTCTGCTCAGCAAATATCAAAAACCGCATCTCCTGTGGAACAATTTCATCATTCATTAGAACAG
- - - - - - - - - -ctaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatg