Sequence
atgc intronic sequence ATGC exonic sequence...taacaatgttttttcccctctgagtgtgagattttcaggatccagaatccctaatcttggacaaacatgtttacaatttactttttatttttattttcagGCAAAGAGAATGGATGTTGTTTGGGGAGAAACAGCTGGGGTAGATGGTCAATTATGGCTGTTGTGTCCCATACTTTTCATTTTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G154328_T01 (Zea mays), 3'ss of exon 7
--taacaatgttttttcccctctgagtgtgagattttcagg-atccagaatccctaatcttggacaaacatgtttacaatttactttttatttttattttcagGCAAAGAGAATGGATGTTGTTTGGGGAGAAACAGCTGGGGTAGATGGTCAATTATGGCTGTTGTGTCCCATACTTTTCATTTTACAG
| || | | || | || || | || | | ||| ||| || ||| || | |||| ||| ||||| || |||||||||||||| |||||||| || ||||| || || |||||||| | ||||||||| || | |||||| | | |||
catggtctaccgacatcactattcgttgcatggcatttagccgtgcaataaacttaagtaaaagcaa-tat-tttgtaactggaattttgcttt-gccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAATTGTTGCTGTTGTGCCCTCTCCTTTTCCTCCTGCAG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G44190.3 (Glycine max), 3'ss of exon 6
---------------------------------------------------------------------------------------------taacaatgttt----tttcccctctgagtgtgagattttcaggatccagaatccctaatcttggacaaacatgtttacaatttactttttatttttat---tttcagGCAAAGAGAATGGATGTTGTTTGGGGAGAAACAGCTGGGGTAGATGGTCAATTATGGCTGTTGTGTCCCATACTTTTCATTTTACAG
|| ||| || ||| | | | | | | |||| || | | | | | || | || || | || |||| | | ||||| | ||| |||| ||||| ||||||||||| ||||| ||||||||||| || ||||| ||| | |||||||||||||| |||||||||| || |||
gttacactaataaatagtttacttttactttctttttccttttctattttagttatattttacccaccctcacaaacattctatcatccttttcaatcatgattaaacttttctttttccttataacatttatag--ttaaatctttcagagctggactgaaaatatataatatttgatccatgtttttctgtattttagGCTAAGAGGATGGATGTTGTGTGGGGGGAAACAGCTGGTGTGGATGGCCAACTGTGGCTGTTGTGTCCTATACTTTTCACATTGCAG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 7
---------------------------------------------------------------------------taacaatgttttttcccctctgagtgtgagattttcaggatccagaatccctaatcttggacaaacatgtttacaatttactttttatttttattttcagGCAAAGAGAATGGATGTTGTTTGGGGAGAAACAGCTGGGGTAGATGGTCAATTATGGCTGTTGTGTCCCATACTTTTCATTTTACAG
| |||| | | | | | | ||||| ||| | | | | | | | | || | | || |||| | | || |||| ||||| ||||||||||| ||||| ||||||||||| || ||||| ||| | ||| | ||||||||||||||||||| || |||
gtgatactgttaaataatatatttttacttgctttttccttttctattttagttatattttacccaccctcaaactttcaatcgtcctgttcaatcatgattaaatttttctttttccctatagcattttatagttaatatatatatttgatccgtgtttttctctgtactttagGCTAAGAGGATGGATGTTGTGTGGGGGGAAACAGCTGGTGTGGATGGCCAACTGTGGTTATTGTGTCCCATACTTTTCACGTTGCAG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G10430.1 (Arabidopsis thaliana), 3'ss of exon 7
taacaatgttttttcccctctgagtgtgagattttcaggatccagaatccctaatcttggacaaacatgtttacaatttactttttatttttattttcagGCAAAGAGAATGGATGTTGTTTGGGGAGAAACAGCTGGGGTAGATGGTCAATTATGGCTGTTGTGTCCCATACTTTTCATTTTACAG
|| ||| | | | |||| |||| || | | | ||| | | | | || | ||| | || | ||| ||| |||| ||||||||||||||||||||||||||||| ||||| || ||||| ||| |||||||||| ||||| ||||| ||||||||||||
-------gtgccttcttatgtca-tgtgcactttttc---tcttcagttcaaaattct--atttgtttttgtaaagtttgcgttgtggtttatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAACTATGGCTGTTATGTCCTATACTGTTCATTTTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatccctaatcttggacaaacatgtttacaatttactttttatttttattttcagGCAAAGAGAATGGATGTTGTTTGGGGAGAAACAGCTGGGGTAGATGGTCAATTATGGCTGTTGTGTCCCATACTTTTCATTTTACAG
ccctaat putative branch site (score: 3)
tttactttttattttt putative PPT
acaaacatgtttacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taacaatgttttttcccctctgagtgtgagattttcaggatccagaatccctaatcttggacaaacatgtttacaatttactttttatttttattttcagGCAAAGAGAATGGATGTTGTTTGGGGAGAAACAGCTGGGGTAGATGGTCAATTATGGCTGTTGTGTCCCATACTTTTCATTTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- -caatgtt
- - - - - - -tcccctc
- - - - - - - - - - tgagtgt
- - - - - - - - - - - - - - - - - - -ggatcca
- - - - - - - - - - - - - - - - - - - - - - - -tccctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgttt