Sequence
atgc intronic sequence ATGC exonic sequence...ctaagcacaaattgccattcatgagaaattattcgtttaattaactataataaattccaattaccaattcttgcactgagaaaatcccgaatttgatcagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g47545.1 (Oryza sativa), 3'ss of exon 7
ctaagcacaaattgccattcatgagaaattattcgtttaattaactataataaattccaattaccaattcttgcactgagaaaatcccgaatttgatcagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
| | | | ||| || || || |||| | | | || || | || | | | | | ||| ||||||| |||||||||||||||| |||| |||| ||||| || || |||||||| || || || || || || ||||| || || |||||||| ||||||||
----------------------gtcagttgaacaatttccttgcctctattaaaat---gtcaacatttact-cattcaaacatgcttattgatgaacagAAACCACAAAGGAATTTGTGGATAAGCTGGATCTTAAACCTGGACAGAAAGTGCTTGATGTTGGGTGCGGAATTGGAGGCGGCGACTTCTATATGGCTGA
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G33790.2 (Glycine max), 3'ss of exon 6
-ctaa-gcacaaattgccattcatgagaaattattcgtttaattaactataataaattcca-attaccaattcttg-cactgagaaaatcccgaatttgatcagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
||| | | | || ||| | | | || || || | || || | || ||| | | || | ||| ||||||| |||||||| |||||||| ||| ||| || ||||| || |||||||| ||||| || |||||||| |||| |||||||| ||||||||||||||
tctattgtcctggtcagaatcttgaagattaggtgctgtgtgtttacagtagttgtttgtgtgtttctaacctttgatgttctgctcattgc----ttgggcagAAACGACAAAGGAGTTTGTGGCAAAGCTGGGACTAAAGCCTGGTCAGAAAGTTCTGGATGTTGGTTGTGGTGTTGGGGGAGGTGATTTCTACATGGCTGA
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 6
ctaagcacaaattgccattcatgagaaattattcgttta--------attaactataataaattccaattaccaattcttgcactgagaaaatcccgaatttgatcagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
| | |||| || | || ||| ||||| || | ||| || ||| || | || | | || | | ||| |||||||||| |||||||| ||||| ||||||| || || || ||||||||||| ||||| || |||||||| | ||| ||||||||| | |||||||| ||
----gtgctaattaaaatctagaaggtgccatttgtttatttttggaatcagtcatagtagatttcatgtg----tttctaaagtgcaagtgctcattccttgtacagAAACAACCAAGGAATTCGTGGCAAAGTTGGGACTAAAACCTGGCCAGAAAGTACTGGATGTTGGTTGTGGTACTGGGGGAGGTGACATTTACATGGCAGA
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G30650.3 (Glycine max), 3'ss of exon 3
-ctaagcacaaatt-gccattcatgagaaattattcgtttaattaactataataaattccaattaccaattcttgcactgagaaaatcccgaatttgatcagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
||| | | | ||| | || | || || | ||| || ||| | | ||| || || | || | || ||||||||||||||||||||||||| ||||||| | || || ||||| ||||| ||||| || |||||||| | || ||||||||| | |||||||||||
tttaaatatatttaagcctattttgtaatatattttttggaatcaatcatattgtagatatcttat--gtttctgaagtgcaagtgcttaatgcatgtgcagAAACAACAAAGGAATTTGTGGCAAAGTTGGGATTAAAACCTGGCCAAAAAGTACTGGATGTTGGTTGTGGTACAGGAGGAGGTGACATTTACATGGCTGA
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G48600.1 (Arabidopsis thaliana), 3'ss of exon 6
ctaagcacaaattgccattcatgagaaattattcgtttaattaactataataaattccaattaccaattcttgcactgagaaaatcccgaatttgatcagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
| | |||||| | |||| || | | ||| | || | | | | | || | | | | | |||| ||||| || ||||||||||| ||| |||| ||||| || || ||||||||||| || || |||||||| || || |||||||||||||||||||||||
--------gtaattccattcttactcttttatc--ttcatatggacatacgtacttgtattgtctgagtgttatctttatgttcttgttttccttaacagAGACAACTAAAGAATTTGTGGCGAAGATGGACCTTAAACCGGGACAGAAAGTCCTAGATGTTGGTTGTGGTATCGGTGGAGGTGACTTCTACATGGCTGA
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G18000.1 (Arabidopsis thaliana), 3'ss of exon 7
ctaagcacaaattgccattcatgagaaattattcgtttaattaactataataaattccaattaccaattcttgcactgagaaaatcccgaat-ttgat-cagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
| | || | | |||| || | | || | | | | | ||| | ||| || | ||| || | | ||||| |||| ||||| || |||||||||| || || | || || || || ||||||||| | || || || ||||||||||| |||||||||||||||||||||||
----gtaaaagct-caattc----gatttcgcttgtgttgtgatgttctgtgtcttc-atttagcagtacttatgtgtgttctgtcgtgtttcttgattcagAGACAACCAAAGAATTTGTGGAGAAAATGAATCTGAAACCAGGACAGAAAGTCTTAGATGTTGGGTGTGGCATTGGTGGAGGTGACTTCTACATGGCTGA
upper sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G73600.1 (Arabidopsis thaliana), 3'ss of exon 7
---------------------ctaagcacaaattgccattcatgagaaattattcgtttaatt--aactata-ataaattccaatt---accaattcttgcactgagaaaatc--ccgaatttgat-cagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
| ||| || || | ||| | | || |||| | |||| | || || | | | | || || | | | |||||| ||| |||||||||||||| |||| || | |||| || || || ||||| ||||| || ||||| || || || || || ||||| |||||||||||||||||
gtatgctctttagtcatcgagtttgtatcaactttgcagtattgatggttctgtttttgaatttaagttatacagaaccattaagtgaagctatcttttcttcttattatacttgtttcttttgatatagAGACAACAAAGGAATTCGTGGATATGCTGGATCTGAAACCTGGCCAAAAAGTTCTAGACGTTGGGTGCGGAATAGGAGGAGGGGACTTCTACATGGCTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataataaattccaattaccaattcttgcactgagaaaatcccgaatttgatcagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
aatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaagcacaaattgccattcatgagaaattattcgtttaattaactataataaattccaattaccaattcttgcactgagaaaatcccgaatttgatcagAAACAACAAAGGAATTTGTGGCTAAGTTGGAGCTTAAGCCCGGCCAGAAAGTCCTGGACGTAGGTTGTGGCATTGGCGGAGGTGACTTCTACATGGCTGA
- - -cacaaat
- - - - - - - ccattca
- - - - - - - - - - - -agaaatt
- - - - - - - - - - - - - - - - - - - - - - - - aataaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaat