Sequence
atgc intronic sequence ATGC exonic sequence...cagtgattgcttgcatttgtctatttagtttaagcaatctgctatttctcatgcattattctttatatatctgactttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 3
-----cagtgattgcttgcatttgtctatttagtt-taagcaatctgctatttctcatgcattattctttatatatctgactttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
| | | | | | | || | | || | ||| | || || || | ||| | | || ||| | | | | || ||||| | || || |||||||| |||||||||||||| | || ||||||||| | || ||||| ||||||||| | |||||| ||||
taatctaacggatcaggagtctcgcttgtacgcttgcacgtaaggccccattgc----acagtagtcatcgcctattttaattgtttattgtcatct--atttcagTGACAAAGGTGAAATGTGTGCGATGAAGGAGGTTACTCTTTTCTCAGATGATCCTAAATCAAAAGAAAGTGCAAAACAGCTGTGCCAG
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 5
cagtgattgcttgcatttgtctatttagtttaagcaatctgctatttct-catgcattattcttta----tatatctgactttttttcttttg---cttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
|| ||| ||||||| || | |||| ||| | ||| | || | |||| || |||||| || ||| ||| || | |||||||||||| ||||||||||||||||||||||| || | |||||||||||||| || |||| ||||||||| || || || ||||||
------ctg-ttgtttttgtct-caaggtgcgggttatctatcattcgtgcattaaatagtttttacttttacatctgatttgatttagtttaacttctgatccatagTGAAAGTGGTGAGATGTGTGCAATGAAGGAGGTAACTCTTTTTTCAGATGATGCTAAATCAAGGGAAAGTGCTCAACAACTTGGCCAA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G42960.1 (Glycine max), 3'ss of exon 2
cagtgattgcttgcatttgtctatttagtt-taagcaatctgctatttct-catgca----ttattctttatatatctgactttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
| || || | ||||| | | || | | || |||| |||| | ||| | || | || || |||||| || ||| || || | |||||||||||| ||||||||||||||||||||||| || | |||||||||||||| || |||| ||||||||| || || || ||||||
---ttgtt-ctgtcgtttgtgtctcaaggtgtgggctatctatcatttgtgcattaaatagtttcttcttttacatctgatttagtttaactt--ctgatccatagTGAAAGTGGTGAGATGTGTGCAATGAAGGAGGTAACTCTTTTTTCAGATGATGCTAAATCAAGGGAAAGTGCTCAACAACTTGGCCAA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G01880.1 (Glycine max), 3'ss of exon 2
cagtgattgcttgcatttgtctatttagtttaagcaatctgctatttc-tcatgcattatt--ctttatatatctgactt--tttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
| ||||| | ||| ||| |||| | | | | | | ||| | | || ||| || | |||||| || ||| || | | || ||| ||| |||| ||||||||||||||||||||||| || | ||||| |||||||| || |||| ||||||||| ||||| || ||||||
---ttcatgctt-tgtgtgtggattatctttatgttttttttttctgcatcaagtccttttaacttcttaattgtgacttagttcaacttctgat-gatctatagAGAATGTGGTGAGATGTGTGCAATGAAGGAGGTAACCCTTTTTTCTGATGATGCTAAATCAAGGGAAAGTGCGCAGCAACTTGGCCAA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 2
cagtgattgcttgcatttgtctatttagtttaagcaatctgctatttctcatgc-attattctttat-atatctgactttttttcttttgcttgga-ctttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
| | || || | | | | | | | ||| | | || ||| || |||| | | | ||| || | || || || | | ||||||||||||||||||||||| ||||| |||||||| ||| ||||||||| | ||||||| ||| |||||||| || |||| |||
-ataaactgatttgttctcttcacaaaatattg--aataggagaactcaaatgttatatttctatgtcacccctgttttgatcggttatgttttcttcctcagTGAAAGTGGGGAGATGTGTGCCATGAAAGAGGTTACTCTATGCTCAGATGATCCTAAGTCAAGGGAGAGTGCACAACAATTGGGGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctcatgcattattctttatatatctgactttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
atctgac putative branch site (score: 3)
tctgactttttttctt CT-rich tract
attattctttatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagtgattgcttgcatttgtctatttagtttaagcaatctgctatttctcatgcattattctttatatatctgactttttttcttttgcttggactttagTGAAAGTGGGGAGATGTGTGCAATGAAGGAGGTTACATTATTTTCAGATGATGCGAAGTCAAAGGAAAGTGCACAGCAGCTGGGCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - gcttgca
- - - - - - - - - - - - - - -ttaagca
- - - - - - - - - - - - - - - - - - - ctgctat
- - - - - - - - - - - - - - - - - - - - - - - -ctcatgc