Sequence
atgc intronic sequence ATGC exonic sequence...gagaattgcgagaattgtgcaaatggtttcgtttacttttcttacattttctcaattaccaaacagagcataatctttcgtgtctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g02580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G44930.1 (Glycine max), 3'ss of exon 1
gagaattgcgagaattgtgcaaatggtttcgtttacttttcttacattttctcaattaccaaac----agagcataatctttcgtgtctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
| | | | || || | ||| || |||| | ||| | | ||| || | ||| || | | | ||| ||| ||||| ||||||| |||||||| ||| |||| ||||||||||||||||| || || | ||||| ||||||||||| |||||||| || || ||||||||||
---atcttcttatgccatctgcccatttagcttcagatttgttgtcttttgtaaataataagtgtttgagactattgttttttgtttgtatctgtgtgtg-cagCTTATTACGAAAGAGGAAGGTTTGCAGCTCTATGAAGACATGGTATTAGGCAGGTCCTTTGAAGACATGTGTGCCCAGATGTATTATAGAGGCAAAATGT
upper sequence: Vv15s0048g02580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G02090.1 (Glycine max), 3'ss of exon 1
gagaattgcgagaattgtgcaaatggtttcgtttacttttcttacattttctcaattaccaaacagagcat--aatctttcgtgtctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
|| | || ||| || | || | || | ||| | || | || | | | | | | | | | || | ||||| |||| | ||||||||||||||||| |||||||| ||| |||| || || |||||||||| ||||||| ||||||| || |||||||||||||
--gattatggaaaatagttggtgttgtgctacagtactgatttggaattttttgtttgggagtaagtgttttgagattattgattttgtctggtgagtacagCTTGTTACAAAAGAGGAAGGGTTGGAGCTCTATGAAGATATGATATTAGGGAGGTTCTTTGAGGACAAGTGTGCTGAGATGTATTATAGGGGCAAAATGT
upper sequence: Vv15s0048g02580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G05550.1 (Glycine max), 3'ss of exon 1
gagaattgcgagaattgtgcaaatggt--ttcgtttacttttcttacattttctcaattaccaaacagagcataatctttcgtgtctttttgtctgttt-cagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
||| | | | || ||| | || | | | || ||| | |||| | || || ||| ||||| | | || | ||||| | || | |||||||||||||| || |||||||||||| |||| || || ||||||||||| ||| ||| ||||||| || |||||||||||||
--aaatagtg-gtgttttgctactgataatatatgtaagtttggaattttttgtttgggtataagtgttttgagattttttttgtctggatttatgaatgcagCTTGTCACAAAAGAGGAAGGGTTGGAACTCTATGAAGACATGATATTAGGGAGGTTTTTTGAGGACAAGTGCGCTGAGATGTATTATAGGGGCAAAATGT
upper sequence: Vv15s0048g02580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G42190.1 (Glycine max), 3'ss of exon 1
gagaattgcgagaattgtgcaaatggtttcgtttacttttcttacattttctcaattaccaaac-agagcataatctttcgtgtctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
|||| | | | || || | |||| | |||| || | ||| || | ||| || | | | ||| ||| ||||| ||||||| | |||||| ||| |||| ||||||||||||||||| || || | ||||| ||||||||||| |||||||| || || ||||||||||
gagatcttcttatgccatctgcccaattagcttcagttttgctgtcttttggaaacgagtgtttgagactattgttttttgtttgtatctgtgtgtg-cagCTTATTACGAAAGGGGAAGGCTTGCAGCTCTATGAAGACATGGTATTAGGCAGGTCCTTTGAAGACATGTGTGCCCAGATGTATTATAGAGGCAAAATGT
upper sequence: Vv15s0048g02580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G01090.1 (Arabidopsis thaliana), 3'ss of exon 1
gagaattgcgagaattgtgcaaatggtttcgtttacttttcttacattttctcaa-ttaccaaacagagcataatctttcgtgtctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
| | | | | |||| | ||| | || | ||| ||| || | | || | || || ||| | || |||| || | |||||||| |||||| |||||||||| ||| || | |||||| |||| || |||||||||||||| ||||| ||| | ||||| ||||
-----------gtacgcttcctct--cctcgtctccttcttttggaattttacaagttgtgagatttgttgtattgatttaagtaatttgaaat-----agTTGATAACCAAAGAGGAAGGATTGGAGTTGTATGAAGATATGATACTAGGTAGATCTTTCGAAGACATGTGTGCTCAAATGTATTACCGAGGCAAGATGT
upper sequence: Vv15s0048g02580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S199_145V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------------------------gagaattgcgagaattgtgcaaatggtttcgtttacttttctt-acattttctcaattaccaaacagagcataatctttcgtg-tctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
| ||| | |||| | | | | || || || || || | | | | || | || | || | | ||| || | |||| || |||||| |||||||||| || |||||||| ||||| | || ||||||||||| || ||||||||||||||||| || ||||
gtgagtggacgtggaggtgactgcgggcgtggattgggttggttggttggttggattggggtgggagctgcattggggatttttgacggttggtgtgtggttgggtgggggattgacgcgattgatgattgcgggattggcagTTGGTGACGAAAGATGAAGGGCTGGAGCTGTACGAGGACATGGTGTTGGGGCGGAGCTTCGAGGACATGTGCGCGCAGATGTACTACAGGGGGAAGATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttctcaattaccaaacagagcataatctttcgtgtctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
tctttttgtctgtttc CT-rich tract
ataatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagaattgcgagaattgtgcaaatggtttcgtttacttttcttacattttctcaattaccaaacagagcataatctttcgtgtctttttgtctgtttcagCTGATTACGAGGGAGGAAGGGTTGGAGCTGTATGAAGACATGGTATTGGGTAGAGCTTTTGAGGACATGTGTGCTCAGATGTACTACAGGGGCAAAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - gcaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagcata