Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtaactttattctctagctactatatttgtgattgattgctggatttagttggtgacggttccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os11g08950.1 (Oryza sativa), 3'ss of exon 8
---------gtgtgtaactttattctctagctactatatttgtgattgattgctgga--tttagttggtgacggt---tccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
| | | | | | || | | || | ||| || | | ||| | | ||| | | || |||| |||||||||||||||||||||||| |||||| |||| ||||||||||||||||||||||| || || |||||||| || || ||||| || ||||||| | ||
gtttgttagctaattgattgtttgctatttcacctttttttttgttgggttgtggcaaccttaccttaccagtgtatgcatatcttttgcagATACTTGGCTCCAGAATATTTCATGCATGGCAAGGTGAATGACAAAATTGATGTATACGCTTTTGGTGTCGTCCTTCTTGAACTCATTTCAGGCAAGAAA
upper sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g62340.1 (Oryza sativa), 3'ss of exon 6
---------gtgtgta-actttattctctagctactatatttgtgattgattgctggatttagttggtgacggttccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
| | || || | || | ||||| | | | || | || || | | | | |||| ||||||||||||||| || || || | | |||||||| ||||| || |||||||||||||| ||||| |||||| | || ||| || ||||||| ||||
gtaagtaccatctctatgctatttttaccagctattgctacttttatcaagtgtgaaat---gcctaagcaaactactcctgtgacagATACTTGGCTCCCGAGTATTTTTCGCACGGGAAGGTCAATGAGAAGATTGATGTCTATGCATTTGGAGTTGTAATTCTGGAGATTATTTCAGGAAGAAGA
upper sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G032337_T02 (Zea mays), 3'ss of exon 7
-----gtgtgtaact-ttattctctagctactatatttgtgattg-attgctg-gatttagttggtgacggttccatctgttg-cagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
| |||| || || | | | | | | ||| | | |||| | ||| || |||| || | ||| ||||||||||||||| |||||||||||| |||| |||||| ||||||| ||||| ||||| || ||||||||||| || ||||| | || || || ||
gtttgtttcttaacaattgttttattgtttttccgtctgttgtagcattggagcaattgctttactgacatagagatatcttggcagATACTTGGCTCCTGAATACTTCATGCATGGCAAGGTGGGCAACAAAATCGATGTGTATGCTTTCGGTGTTGTACTTCTGGAGCTCATCTCTGGCAGGAAA
upper sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G16130.1 (Glycine max), 3'ss of exon 7
gtgtgtaactttattctc-tagctactata---tttgtgattgattgctggatttagttggtgacggttccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
||||||||| | ||| | || || | | | | | | | ||||| | | ||| |||| |||||||| | || || || ||||| ||| | || | |||| ||| |||||||| || ||||| |||||||||||||||||||||||||| ||| ||| |||
gtgtgtaacatccctcttgttcctcctttggcttgtttaccttagcttttgatttgttctgaacaagttttgtctg--gcagATACCTCGCACCTGAGTACTTTATGCACGGTAGAGTGACTGATAAAATTGACGTATATGCTTTTGGTGTTGTACTCCTTGAGCTTCTCTCAAATAGGAAG
upper sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G38770.1 (Glycine max), 3'ss of exon 8
gtgtgtaactt------tattctctagctactatatttgtgattgattgctggatttagttggtgacggttccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
||| ||| | | | ||||| || | | | | | ||||| | | ||| ||||| |||||||| | || || || ||||| ||| |||| | |||| ||| |||||||| || ||| | ||||||||||||||||| |||||||| ||| ||| |||
gtgagtagcatccctagtgttctcctcctttggcttgtttacctttacttttgatttgttctgaacaagttttatctg--gcagATACCTCGCACCTGAGTACTTTATGCATGGTAGAGTGACTGATAAAATTGACGTATATTCTTTTGGTGTTGTACTCCTCGAGCTTCTCTCAAATAGGAAG
upper sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G63940.1 (Arabidopsis thaliana), 3'ss of exon 7
gtgtgtaactttattctcta-gctact-----atatttgtgattgattgctggatttagttggtgacggt--tccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
|| | |||||| ||| || | | | | | | | | | || | | | || | || ||| | ||| ||| | || ||||| ||||||||| | || || || | ||||| |||||||||||||| |||||||||||| | || ||||| | || ||||||||
gtatttaacttgcttcgttacaccatctcttaaaaactatcaccattccatcaatctgcctcttaactttcttctttctttgacagTTACCTAGCACCAGAGTACTTCATGCACGGTAAAGTAACCGACAAGATTGATGTCTATGCTTTTGGTGTTGTATTGCTCGAGCTCATATCGGGTAGAAAA
upper sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S249_93V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------------gtgtgtaactttattctctagctactatatttgtgatt-gattgctg-gatttagttggtgacggttccatctgt------tgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
| || | | | | || | | |||| || || | | || | | | | | || | || |||||||| | || || ||||||||||||||||||| ||||| |||| | ||||||||| || ||||| |||||||| |||||||| | | ||| |
gtatctacagcctttccccaattatcgctgaaactcagacattgtctgtcttttctgtgttttgaacacagcaatatggaaaatttctgatctaagagtgacctctgcagATATCTCGCACCTGAATACTTCATGTATGGGAGAGTGAACAACAAGACTGATGTCTACGCTTTTGGCGTTGTACTGCTTGAGCTCATAACCGGTCGGCCA
upper sequence: Vv04s0044g01560.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S242_29V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------gtgtgtaactttattctctagctactatat--------ttgtgattgattgctgg-atttagttggtgacggttccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
||| | | | || ||| ||| ||| | | | ||| | || | || || ||| |||| | ||| |||||||| || ||||||||||||||||||| |||||| ||||| || ||||| || || || ||||| || || | |||||| | | ||||| ||
gggtgtgggattaaactgtggcgctttcctgcagccactgtatcatcgacgtagcagtcgatcgttgatacataactgactggcgttatatctctaccagGTACTTGGCCCCGGAATACTTCATGTATGGGAGGGTGAACGACAAGATCGATGTGTACGCATTCGGTGTAGTGCTTTTAGAGCTTATCACGGGTAGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actatatttgtgattgattgctggatttagttggtgacggttccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
gattgat putative branch site (score: 4)
ttccatct putative PPT
atttagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtaactttattctctagctactatatttgtgattgattgctggatttagttggtgacggttccatctgttgcagATACTTGGCTCCAGAATACTTCATGTATGGGAAGGTGAATGACAAAATTGATGTCTATGCGTTTGGTGTTGTACTCCTTGAGCTTCTTTCAGGTAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT