Sequence
atgc intronic sequence ATGC exonic sequence...atgtttcatacaggatcatgtattcttattacatgtagcatcaacttgacagtggcttgtactatgtataaaggcaaaattttgtgttttaaaattgcagGAGAAGGTACAGGGCTTCTTCGCCTCCATAGTACATACCGTCATGATCTCAAGATTTACAGCTCTGATGAGGGTCGTGTGCAG
Basic information
species | Glycine max |
transcript | GLYMA19G02260.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 18
atgtttcatacaggatcatgtattcttattacatgtagcatcaacttgacagtggcttg-tactatgtataaaggcaaaattttgtgttttaaaat----tgcagGAGAAGGTACAGGGCTTCTTCGCCTCCATAGTACATACCGTCATGATCTCAAGATTTACAGCTCTGATGAGGGTCGTGTGCAG
| | | | ||| || |||| | || | || | || | ||||| | || | | | |||| |||||| ||||| || || | ||||| ||||||||||| ||||||||||| || || |||||||||||||| ||||| ||||| |||
gtaagggaacttgatctacttatatttgttactttccacaggagtttagtgtactcgtgacgatcagtatattttctaagtatctcacgatgaaatggcatgcagGTGAAGGGACTGGTTTGCTTCGTCTCCATAGTACGTACCGTCATGACCTTAAAATTTACAGCTCTGACGAGGGACGTGTTCAG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 15
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 18
-------------------------------------------------------atgtttcatacaggatcatgtatt--cttattacatgtagcatcaacttgacagtggcttgtactatgtataaaggcaaaattttgtgttttaaaattgcagGAGAAGGTACAGGGCTTCTTCGCCTCCATAGTACATACCGTCATGATCTCAAGATTTACAGCTCTGATGAGGGTCGTGTGCAG
|||| ||||||| | || | ||| | || | | | | | ||| || | |||| | | | | | || |||| |||||||| || | || || |||||||||||||||||||| || || || |||||||||||||| ||||| ||||| |||
gtgacaacacattacctgcttgatttgtccaatcatttcatattctaccttccatatgtctcatacaattttctgaaacagtccattgta-gttgtgttgatcaatatacatttatttctaagtggttaatgaaaaactggggatatg--ctttcagGGGAAGGTACCGGTTTGCTCCGTCTCCATAGTACATACCGTCACGACCTTAAAATTTACAGCTCTGACGAGGGACGTGTTCAG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 17
--atgtttcatacaggatcatgtattcttattacatgtagcatcaacttgacagtggcttgtactatgtataaaggcaaaattttgtgttttaaaattgcagGAGAAGGTACAGGGCTTCTTCGCCTCCATAGTACATACCGTCATGATCTCAAGATTTACAGCTCTGATGAGGGTCGTGTGCAG
||| | | || || | | | | | | || ||| || | | | | | ||| | || | | | ||||||||| ||||| || || || |||||||| |||||||| || ||||||||||| || ||||||||||| |||||||||||||| |||
aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctct-tggtgattt-ttttttttttttttttaaattgttattgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgacagtggcttgtactatgtataaaggcaaaattttgtgttttaaaattgcagGAGAAGGTACAGGGCTTCTTCGCCTCCATAGTACATACCGTCATGATCTCAAGATTTACAGCTCTGATGAGGGTCGTGTGCAG
acttgac putative branch site (score: 4)
aaaattttgtgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtttcatacaggatcatgtattcttattacatgtagcatcaacttgacagtggcttgtactatgtataaaggcaaaattttgtgttttaaaattgcagGAGAAGGTACAGGGCTTCTTCGCCTCCATAGTACATACCGTCATGATCTCAAGATTTACAGCTCTGATGAGGGTCGTGTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - -tcataca
- - - - - - - - catgtat
- - - - - - - - - - - - - - - acatgta
- - - - - - - - - - - - - - - - - - - catcaac
- - - - - - - - - - - - - - - - - - - - - - - - - -gtggctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgtg