Sequence
atgc intronic sequence ATGC exonic sequencegtatgatgactgttcctgaattgtttgtgttctttttgttaaaaaatgattgtctaattaggttaaccttttaacaattttatctgttttcagGGACTGTTGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTGTGCAGTCATGCTGGCATCCAG
Basic information
species | Glycine max |
transcript | GLYMA02G00510.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 18
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 17
-----------gtatgatgactgttcctgaattgtttgtgtt-ctttttgttaaaaaatgattgtctaattaggttaaccttttaacaattttatctgttttcagGGACTGTTGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTGTGCAGTCATGCTGGCATCCAG
| | | | || | |||||| || | || || || | | || | | || | ||| || || |||| |||||||||||||| || || || || |||||||| |||||||| || || || ||||||||||| ||||||
actgttttgaggcacagtcag-atttttcttttgtttaaattgcattacattgaagtacttccccatgtttctatga--ctgctcacatgttgattgaaa--cagGAACTGTTGTTGATTCTAAGATATGCCACCCAACAGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
------------------------gtatgatgactgttcc-tgaat-tgtttgtgttctttttgttaaaaaatgattgtctaattaggttaaccttttaacaattttatctgtttt-cagGGACTGTTGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTGTGCAGTCATGCTGGCATCCAG
|| || || | || || ||| || | | | | | | | | | || || | || | | || ||| || |||| || || |||||||| ||||| || ||||| || ||||||||||||||||| ||||| |||||||| || |||
gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggg-gttcctttttccagatttatctaaccatatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 18
lower sequence: PP1S28_182V6.1 (Physcomitrella patens), 3'ss of exon 16
---------------------------------------------------------------gtatgatgac-tgttcctgaattgtttgtgttctttttgttaaaaaatgattgtctaattaggttaaccttttaacaattttatctgttttcagGGACTGTTGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTGTGCAGTCATGCTGGCATCCAG
| | || || | || ||| | | || | | | || || | | | | | | | | | || ||||| |||||||||| || || || || ||||||||||| |||||||| ||||| ||||| || ||||||||||| || |||
gtatattctcattcgtgcttcagactattttatttgttcacttgcgtgcttggaaggcattctattttataacattttgatgattcgggaagcttgtagcagcatgatcttggatgcttcaatgtatctaacgtgtcctgtatataaatgttt-cagGGACTGTAGTGGACTCAAAGATCTGTCATCCTACAGAATTCGATTTCTATCTTTGTAGTCATGCTGGGATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaaaaatgattgtctaattaggttaaccttttaacaattttatctgttttcagGGACTGTTGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTGTGCAGTCATGCTGGCATCCAG
ttttaac putative branch site (score: 2)
ttttatctgttttc putative PPT
ttttaacaattttatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatgactgttcctgaattgtttgtgttctttttgttaaaaaatgattgtctaattaggttaaccttttaacaattttatctgttttcagGGACTGTTGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTGTGCAGTCATGCTGGCATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG