Sequence
atgc intronic sequence ATGC exonic sequencegtaaaattatagatcagttcacactatattagttatggacttttatgctagcccatatgtcttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g40840.1 (Oryza sativa), 3'ss of exon 4
--gtaaaattatagatcag-ttcacactatattagttatggacttttatgctagcccatatgtcttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
|| | | ||| | || || |||| | || | ||| | || ||| | | | ||| | | | ||||| | || |||||||| | ||||| || ||||| | || |||||||| ||| |||||||||||||||| ||| | | |||||||||||||||||||
tgatatagctgatgataatctttgcattatac-acacattttcgactatttaaaatttattgacttgaaatcgtatttctttccattttcttgcattgcagAGCAATAGACTGCACAAGATTCTTGACTTCGTGAGTTCAGTGCATGATCTCTGTTCTGTCCTTGGGATGGATTTCCTGAGCACTGTTACTGAAGTTCATC
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G02180.3 (Glycine max), 3'ss of exon 4
----------------gtaaaattatagatcagttcacactat-attagttatggacttttatgctagcc-catatgtcttcaggatcaccaccaatt------aattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
|| ||| || |||||||| | | | || || | | || | | ||| | | ||| | || ||| | | || |||||||| |||||||||||||| ||||| |||||||| ||||| ||||||||||||||||||||||| ||||||||||| | ||||| ||||| |||||||
gtaattctgttataatgttcaataatgagtcagttcagtttgtcactactttggaaaattccttttgatttcatttactaaacagctcattgagagttttgttgcattgccttgtttggcagAGTGAGAGGTTGCACAAGGTTCTTGAATTTGTGAGTACTGTGCATGATCTATGTGCTGTCCTTGGTATGGACTTCTTCAGTACTGCAACTGAGGTTCATC
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G46450.3 (Glycine max), 3'ss of exon 4
----------------gtaaaattatagatcagttca-cactatattagttatggacttttatgctagcccatatgtc--ttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
|| ||| || |||||| || || || | | | ||| | || | | ||| | | ||| | | || ||||| || |||||||||||||| ||||| |||||||| || || ||||||||||||||||||||||| || |||||||| | |||||| ||||| |||||||
gtaattctgttataatgttcaataatgtgtcagtttgtcattaatttggaaaattccatttgatttcattcacaaaacagctcattgagagttttgttgcattgccttgtttggcagAGCGAGAGGTTGCACAAGGTTCTTGAATTTGTGAGTACGGTGCATGATCTATGTGCTGTCCTTGGTATAGACTTCTTCACTACTGTAACTGAGGTTCATC
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G10090.1 (Glycine max), 3'ss of exon 4
----------------gtaaaattatagatcagttcacactatatt--agttatggacttttatgctagcccatatgtcttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
| ||| || ||| || | | ||| | | | | | | | ||| | ||| || | | | || || || || |||||||| |||||||||||||| ||||| | |||||| ||||| ||| |||| |||| ||||||||| ||||||||||| | |||||| | |||||||||||
gtaactttgttataccatcaaagaatgtatcgattagtaaaaaattgaaacttttgtttgattttctaatcaatacgttgagggttttgctact------ttgcttcgccttgcagAGTGAGAGGTTGCACAAGGTTCTTGATTATGTGAGTACTGTGCATAATCTTTGTGTTGTCCTTGGCATGGACTTCTTCAGTACTGTGATTGAAGTTCATC
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G02200.1 (Glycine max), 3'ss of exon 5
gtaaaattatagatcagttcacactatattagttatggacttttatgctagcccatatgtcttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
|| || | | | ||||||||| | || || || ||| ||| | ||| | | ||| | | ||| ||| | | | ||| | || | |
----------------gtatgtgctgtccttggtatggacttcttcagTACTGCAACTG-----AGGTTCATCCAAGTCTAAATGACTCTACTGGTGGTCAATTAAAGAGCATAAGTAATGACACCCTAGCAAGGCTGGCTAAGACCGTCTTA---------------------------------------------
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G55230.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaaattatagatcagttcacactatattagttatggacttttatgctagcccatatgtcttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
|| ||| | |||| || | | |||| || | | || || ||||| | | || | || |||||||||||| ||| |||||| | ||||||||||| ||||||||||||||||||||||| ||||| |||| ||||| | || || || ||||||||||
----------------gtaaacattgagttagaaatctccgtatatgatatgttgcttatgttt----tccttaccaactgctc---tgttttggcagAGTGACAGGCTGCGCAAGGTGTTAGAGTTTGTGAGTACTGTTCATGATCTATGTGCTGTTCTTGGTTTGGATTTCTTAAGCACCGTCACCGAAGTTCATC
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G26760.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaaattatagatcagttcacactatattagttatgg-acttttatgctagcccatatgtcttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
| ||||||||| | | ||||| | || ||||| | | || | || | | || | |||||||| ||||| || ||||| || |||||||||||||| || |||||||||||||| |||||| | | || ||||| | ||||| || ||||||||||
--------------------gtaaaatattagttgggatatggttatgtgtggcc-tatgttcaaaccagaacta--aaactgctttgtgtttgagcagAGTGATAGGTTACAGAAGGTGCTCGAGTTTGTGAGCACGGTGCATGATCTATGTGCCGTCCTTCGTTTAGATTTCTTAAGCACTGTCACCGAAGTTCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgctagcccatatgtcttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
aattaattatttgatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaattatagatcagttcacactatattagttatggacttttatgctagcccatatgtcttcaggatcaccaccaattaattatttgatctgccagAGTGACAGGTTGCACAAGGTCCTTGAGTTTGTGAGCACTGTTCATGATCTATGTGCTGTCCTTGGGATGGACTTCTTTAATACTGTTACTGAAGTTCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG