Sequence
atgc intronic sequence ATGC exonic sequencegtaacttggtttgcattttatttagcgttgtccctatataaatgaatgaggaattctcagaaatttgggtttatttatttatttatttttattttttaaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g24550.1 (Oryza sativa), 3'ss of exon 4
gtaacttggtttgcattttatttagcgttgtccctatataaatgaatgaggaattctcagaaatttgggtttatttatttatttatttttattttttaaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
| | | | | | | ||| |||||| || |||| | | || | | | | | || || | |||||||| |||||||| |||||||| ||||||||||| || | || |||||||| || || ||||| ||||
----------gtaaactacgcgcaccaccataaattgttaatcccatgagggttt---agaatgcaagatataataggtattatgtcttggttgacaatgacagGGTCACTGTGGCTCGTGTTGGGCATTTGGTGCTGTGGAGTGTCTCCAGGATCGTTTCTGCATTCATTTCAACATG
upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G108849_T04 (Zea mays), 3'ss of exon 5
gtaacttggtttgcattttatttagcgttgtccctatataaatgaatgaggaattctcagaaatttgggtttatttatttatt-tat----ttttattttttaa-atcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
||| | ||| | | || | | | || || || | | | | | || | | | || | ||| | || | | | | | |||||||| ||||||||||||||||||||||||||||| || | || || |||||||| || || | ||||
----cttcatgagcagatcaagtaagttcaacagtcta-gcatatattattagtgcctaaaagagcgatgcaacatgcttgtagtataatgtcttgtctgatgacAACAGGGTCACTGTGGCTCTTGTTGGGCTTTTGGTGCTGTGGAGTGCCTCCAGGACCGTTTTTGCATTCACCTCAACATG
upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G41120.1 (Glycine max), 3'ss of exon 5
gtaacttggtttgcattttatt-tagcgttgtccctatataaatg-aatgaggaattctcagaaatttgggtttatttatttatttatttttattttttaaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
|||| | ||||| | | || || ||| || ||| ||| ||| ||| | | || | | | || | ||||||||| ||||| ||||||||||| ||||||||||||||||| |||||||||| ||||| || ||||||| |
gtaatcc---tcatattttctcacactaacatctttaaatacattcaattcaaggttcaaagagttttcagctgatccttgtgctgat-----------gattcagGGTCACTGTGGTTCTTGTTGGGCATTTGGTGCTGTTGAATCATTGTCAGATCGCTTTTGCATTCATTTTGATGTA
upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G38520.1 (Glycine max), 3'ss of exon 5
gtaacttggtttgcattttatttagcgttgtccctatataaatgaatgaggaattctcagaaatttgggtttatttatttatttatttttattttt-taaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
|| | ||| || | | | || | | ||||| || ||| | | | | || | || | | || || || | | | | ||||||||| ||||| ||||||||||| ||||||||||||||||| |||||||||| ||||| || ||||||| |
-----gtgatcctcatattttctcacactgacatctt-taaatacattc--aatgttaaaagagtt---tctagctgatccttcatccttgtgctgatgattcagGGTCACTGTGGTTCTTGTTGGGCATTTGGTGCTGTTGAATCATTGTCAGATCGCTTTTGCATTCATTTTGATGTT
upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G01610.2 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------------------------------------------gtaacttggtttgcattttatttagcgttgtccctatataaatgaatgaggaattctcagaaatttgggtttattta--------------tttatttatttttatt-ttttaaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
|| ||| | || | | || | ||| ||| | | || | | ||| | ||| | || ||||| |||| | |||| | |||| |||||||| ||||| ||||| ||||||||||||||||| || |||||| | || |||||||| |||||||||
gttttatgcttttagctttttcctcacaattttagtgttcaattgcatttcgttattaactcttggtttttgtgtgtgtgtgttgact-gctctatgaacagatcaggtaaattatcaatcttttgtgtatcttgtaacttttagatttgtctagaggaataaatggttttatgagattttgtggttttggtttagGGACATTGTGGTTCTTGCTGGGCATTTGGTGCTGTTGAATCACTATCAGATAGATTCTGTATCCAATTTGGCATG
upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G01610.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaacttggtttgcattttatttagcgttgtccctatataaatgaatgaggaattctcagaaatttgggtttatttatttatttatttttattttttaaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
|||| || | |||| | || | | | | || | || | | | | |||| || ||||| || | | |||| ||| |||| |||||||| ||||| ||||| ||||||||||||||||| || |||||| | || |||||||| |||||||||
gtaaatta-tcaatcttttgtgtatcttgtaacttttagatttgtctagaggaat-----aaat--ggttttatgagattttgtggttttggttt-------agGGACATTGTGGTTCTTGCTGGGCATTTGGTGCTGTTGAATCACTATCAGATAGATTCTGTATCCAATTTGGCATG
upper sequence: Vv07s0005g02820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G02305.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaacttggtttgcattttatttagcgttgtccctatataaatgaatgaggaattctcagaaatttgggtttatttatttatttatttttattttttaaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
| || | ||||| | | ||||| || || | | |||||||| | | | || |||| | |||| ||| || ||||||| ||||| ||||| ||||| ||||||||||||||||| ||||| || | || || ||| | | | ||||
---------gtaacagatcattta-cttgagttttatat---tgcataatgggttctcagaca----gatataaacattt--tggttttggtttgtt----tagGGTCACTGTGGTTCTTGCTGGGCCTTTGGTGCTGTTGAATCACTGTCTGACAGATTCTGCATCAAATATAACATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaattctcagaaatttgggtttatttatttatttatttttattttttaaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
tttatttttatttttt CT-rich tract
aaatttgggtttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacttggtttgcattttatttagcgttgtccctatataaatgaatgaggaattctcagaaatttgggtttatttatttatttatttttattttttaaatcagGGTCATTGTGGCTCTTGTTGGGCTTTTGGTGCTGTTGAATCGCTGTCAGATCGTTTTTGTATCCATTTTGGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT