Sequence
atgc intronic sequence ATGC exonic sequence...gtttttgccatcatagtttatgcatttatggatgtctccaatatatgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os03g51020.1 (Oryza sativa), 3'ss of exon 3
gtttttgccatcatagtttatgc--atttat-ggatgtctccaatatatgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
|| || | || || | || || ||| | | || |||| | || | || | | | ||| || ||||||||||||||| | || || || || ||||| |||||||| |||||||| ||||| || || || |||||||| ||||| ||||| || |||||||||||||
-gttctgagactattcttcaagctgatgtattaggactgtctgatatctttcaaatttatgtcattacatcctataacaaatttgaagcatttg--tttgcagGAACATTTGCTTATAGTCTGTGAGCTTCTGAAGGCAAATTTGTATGAATTTCAAAAGTTCAACAGAGAATCAGGAGGCGAGGTCTATTTCACAATGCCAA
upper sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G015073_T01 (Zea mays), 3'ss of exon 3
---gtttttgccatcatagtttatgcatttatggatgtctccaatatatgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
||| | ||| ||| || ||| | | || | | | ||| ||| | | | || | | | || | | ||||||||||||||| | || || || |||||||| |||||||| ||||||||||||| ||||| || |||||||| || || ||||||||||||||||||||||
ggaatttcagagctcagggttgata-attggttcttttccaaagcaatttgccttaaagtcacaac--atttctttaccacttatttcaaatactgtttgcagGAACATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTATGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
upper sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 3
-------gtttttgccatcatagtttatgcatttatggatgtctccaatatatgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
| || ||| | | || | | | || ||| | ||| ||| |||| | || | | | | | || ||| |||||| ||||| | || || || |||||||| |||||||| |||| |||||||| ||||| || |||||||| || || ||||||||||||||||||||||
taaatgactcttctccaaaacaaattgctctcgagtcacagcatcatataataaagtttgttgtgtttgctgtactactta------ttttaaacattgttt-gcagGAGCATTTGCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAA
upper sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G33560.1 (Glycine max), 3'ss of exon 3
gttt-ttgccatcatagtttatgcatttatggatgtctccaatatatgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
|||| | | | | ||| || | | | | | | | | || | || | || ||| || || || || | | |||||||||||| ||||| ||||| ||||| || || |||||||||||||||||||||||||||||||||||||| || || || || ||||| ||||||||||
gtttacttctgttaatttttgaatggccttgtttatttatagt-tctacaccaaatttgtcatctaactttatcactctttcttttcccattgtatggcagGAACATTTGTTAATAGTATGTGAACTACTTAAAGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCAGGTGGTGAAGTGTACTTTACAATGCCAA
upper sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G06160.1 (Glycine max), 3'ss of exon 5
gtttttgccatcat-agtttatgcatttatggatgtctccaatatatgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
| ||| | | | ||| | || | | | | | | | | |||| || | || ||| || || || || | | |||||| ||||| ||||| ||||| || || || || |||||||||||||||||||||||||||||||||||||| || || || || ||||| ||||||||||
-tgtttacttctgttaattttttaatgccttgtttattaatagttgtacaccaaatttgccatctgatttcatcactctttcttttcccattgtatggcagGAGCATTTGTTAATAGTATGTGAGCTACTTAAAGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCAGGTGGTGAAGTGTACTTTACAATGCCAA
upper sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G29970.1 (Glycine max), 3'ss of exon 3
gtttttgccatcatagtttatgcatttatggatgtctccaatatatgattttacagtgcctgctca--attagtcag--gagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
|| | | | ||||| | | | | ||| || | | ||| | | | | ||| || |||||| | || | ||||||||||||| ||||| ||||| ||||| || || || ||||| ||||||||||| ||||||||| ||||||| || || || || || ||||| |||||||
----atgttttaaaacattatgaggggctatccttttaaactatgatgttgagaaatatctgtttactagtgatcatctgactttactacgccttgtactgcagGAACATTTGTTAATAGTATGTGAACTACTTAAAGCCAACTTATATGAGTTTCACAAATTTAATCGAGAATCAGGGGGTGAAGTGTATTTCACGATGCCAA
upper sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 3
gtttttgccatcatagtttatgcatttatggatgtctccaatatatgattttacagtgcctgctca--attagtcag--gagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
|| | | ||| | |||| | | ||| | || | | ||| | | | | ||| || |||||| | || | ||||||||||||| ||||| ||||| ||||| || || || || || ||||||||||| ||||||||| ||||||| || ||||| || || ||||| |||||||
---aacataatgaagggctatcctttta-aactataggcaaagtgatgttgagaaatatctgttgattagtgatcatctgactttactacctcttgtactgcagGAACATTTGTTAATAGTATGTGAACTACTTAAAGCCAATTTATATGAGTTTCACAAATTTAATCGAGAATCAGGGGGGGAAGTGTATTTCACGATGCCAA
upper sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G17750.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------------------------------------------gtttttgccatcatagt----ttatgcatttatggatgtctccaatatatgattttaca---gtgcctgctcaatta-gtcag-----gagtttacttt---cctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
|| ||| | || | ||| || || | | | || || | | | | | |||| | || | | || | | ||| || || |||||||||| || | ||||| ||||| ||||||||||||||||||||||||||||| || || |||||||| ||||| || || |||||||| ||||| |||||||
gtaagtagatagatgcagaattgtatctttttcttttcaacaccgggtggatattctgctgctttggtgctatgatgtatcaattgttcgattcagtaaagaacatgggacgtgagcctacatcatgatgccattgactgtgattaattggaatctcagttttgcagGAGCACCTGTTAATAGTATGTGAACTTCTCAAGGCAAACTTGTATGAGTTCCAAAAGTTTAATAGGGAATCAGGGGGAGAGGTTTATTTCACTATGCCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
tttactttcctttatt CT-rich tract
tttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttgccatcatagtttatgcatttatggatgtctccaatatatgattttacagtgcctgctcaattagtcaggagtttactttcctttattttgcagGAACATTTATTAATTGTATGCGAACTTCTCAAGGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCCGGAGGGGAGGTTTACTTCACAATGCCAA
- - - gccatca
- - - - - - - - - tatgcat
- - - - - - - - - - - - - - - - - tctccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgctc