Sequence
atgc intronic sequence ATGC exonic sequence...gcattattaacccatgttgatgtgcaggctgtctaattttttttatttatttcttcttctgtatcttcctttaacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 1
-gcattattaacccatgttgatgtgcaggctgtctaattttttttatttatttcttcttctgtatcttcctttaacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
| | | || | | || | | | | | | | | ||| || || || || | ||| ||||| | | || ||||| || || || || || ||||||||||||||||| |||||||||||||||||||| || ||||| ||||||||| | ||||||
gccctcaggaaacggagaaaattcctgcgttccagaggctcaaaccactgacaggaaatttaaaccttactgaaaatcaccatgatctaccgtcttg-cagGGACTATCGCCTTATGAGAAGAAAAAGTACGTATGGAAAATGCTTTACATATATATGCTGGGTTATGATGTTGACTTTGGGCACATGGAAACTGTTTCTT
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G700148_T01 (Zea mays), 3'ss of exon 1
gcattattaacccatgttgatgtgcaggctgt--ctaattttttttatttatttcttcttctgtatct-tcctttaacccaaaatttgatggtcc-tttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
|| | | | | | ||| || | | | |||| ||| | | | || ||| || | |||| | | | ||||| ||| ||||||| || || || |||||||| |||||||||||||||||||||||||||||||||||||| |||||||| || |||||| | || ||
-agttgtaggcttgtagccctcccttgaatgttcctgaaacccctaaattatgggcactttgcaaccaatgctataaatcata---tgatttcctatcttgcagGGCTTGTCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
gcattattaacccatgttgatgt-gcaggctgtctaat-tttttttatttatttcttcttctgtatcttcctttaaccca------aaatttgatggtcctttg----acagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
|||| | ||| || | | |||| || | || | ||| | | | | |||| | |||| || | ||| ||||| || ||||||| || || || |||||||| |||||||||||||||||||||||||||||||||||||| |||||||| || |||||| | || ||
------------catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 1
gcattattaacccatg-----ttgatgtgcaggctgtcta--attttttttatttatttcttcttctgtatcttcctttaacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
|| | | ||||| || |||| | | | |||| |||| || | | | ||| | ||| | |||| | | || ||| | |||| |||||||| |||||||||||||| ||||||||||||||||| |||||||| || |||||||| |||||||||||||||||||| |||||||
---ttgatgatccatggttccctggattgcaatgtcacaagaatttcttttgttgactagtaaactaatatttattttt--ttttacctttggttctatctt--tagGCTCTGACTCCATATGAGAAAAAGAAATATGTTTGGAAAATGCTTTACATATATATGCTTGGCTATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTC
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 1
--gcattattaacccatg-----ttgatgtgcaggctgtctaattttttttatttatttcttcttctgtatcttcctttaacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
||| | | ||||| || |||| | ||||| ||||||| | | | ||| | ||| ||| || || |||| ||| |||||| |||||||| |||||||||||||| ||||||||||||||||| |||||||| || |||||||| |||||||||||||||||||| |||||||
agaaattgatgatccatgattccctggattgcaatgtcaagaatttcttttattgactagtaaactaatatatcttttttacctttggttctat----cttt---agGCTTTGACTCCATATGAGAAAAAGAAATATGTTTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTC
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 1
---gcattattaacccatgttgatgtgcaggctgtctaattttttttatttatttcttcttctgtatcttcctttaacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
| | | ||| | || || || ||| | || || || | ||| | || || | | ||| |||| || |||||||| |||| |||||||||||||||||||||||||| || ||||||| || || ||||| |||||||| || ||||| ||||||||||
ggatccatgtgtggccagttggaccaacaccaaacttattttaaaatgttagaaataaattaatcatgcactctta-ctttaacttgttttatgtttt--cagGTCTTAACACCATACAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCAGTTTCTC
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 1
gcattattaacccatgttgatgtgcaggctgtct---aattttttttatttatttcttcttctgtatcttcctt-taacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
|| ||| | | | || | | || | ||| || || || | || | | || | ||| | | ||| |||| ||||||||||||| |||| |||||||||||||||||||||||||| || ||||||| || || ||||| |||||||| || ||||| || |||||||
----agttggaccaacattaaacttattctttttcggggttcatgttagaaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S171_160V6.1 (Physcomitrella patens), 3'ss of exon 1
gcattattaacccatgttgatgtgcaggctgtctaattttttttatttatttcttcttctgtatcttcctttaacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
| | |||| | | || || | |||| | || | ||| ||| | || | | ||||| ||| | || || |||||||||||||||||||| || || ||||| || ||||| || || ||||| ||||| |||||||||||| || | | |
-------------gcatccagtctcagggt-ttcgatcgttgaagtaggattctacccggagatttgattttgtggcaa---tccgtgcttc-----cagGGCTTGTCTGTTTACGAGAAAAAGAAATATGTCTGGAAGATACTGTACATATACATGCTTGGGTACGATGTTGATTTCGGTCACATGGAAACAATGGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatttcttcttctgtatcttcctttaacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
tccttt CT-rich tract
aaaatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcattattaacccatgttgatgtgcaggctgtctaattttttttatttatttcttcttctgtatcttcctttaacccaaaatttgatggtcctttgacagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - -taaccca
- - - - - - - - - - - -gcaggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatggt