Sequence
atgc intronic sequence ATGC exonic sequence...gttgttggggcagtctcttttcattcattatttatttctgctcatatttttgtttcattttgattatacatatttgtttaacatttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCCGTACAGCCGGTTTCTAAAGATTC
Basic information
species | Glycine max |
transcript | GLYMA01G14800.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 10
gt-tgttggggcagtctcttttcattcatt--atttatttctgctcatatttttg----tttcattttgattatacatat-ttgtttaa-catttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCCGTACAGCCGGTTTCTAAAGATTC
|| | | ||| | || | | ||| | | | || | ||| |||| | | | ||||| || || || | |||||| ||||| ||||| || || ||||| || ||||||||||| || ||||| |||||||| || || ||||| ||||| || || || ||||| ||||||||
gtacagtaaaatattcttccgtacttgttcgaacttaacataatttgcttctctggggatgaaattctgatattgtgtttgttgttgggtcaattttcctaa--atcagGTGATACATTTACGGATGGATCAGTCAAGTACACAATGACATCGATGAACGTTCCTGAACCTGTTATGTCCTTAGCTGTTCAACCAGTTTCAAAAGATTC
upper sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 10
gttgttggggcagtctcttttcattcattatttatttctgctcatatttttgtttcattttgat-tatacatatttgttta-----acatttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCCGTACAGCCGGTTTCTAAAGATTC
|| || || || ||| | || ||| | | |||| |||||||||| | || |||| |||||| | | | | || | || ||||||||| |||||||||||||| || ||||| | |||||| ||||| |||||||||||||| || || || ||||||||||| | || |||||||| |||||
--tgatgcttcattccaattttgcttat-attgctctttgctt---catttgtttcatatatatatatatatatttcatgatatctaaacttctttttgtcatcagGTGATACTTTTACTGATGGGTCAGTGAGATACACCATGACCTCTATGAATGTTCCAGAACCGGTCATGTCATTAGCTATTTCACCCGTTTCTAAGGATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttgtttcattttgattatacatatttgtttaacatttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCCGTACAGCCGGTTTCTAAAGATTC
gtttaac putative branch site (score: 3)
tttgtctt CT-rich tract
tttcattttgattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgttggggcagtctcttttcattcattatttatttctgctcatatttttgtttcattttgattatacatatttgtttaacatttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCCGTACAGCCGGTTTCTAAAGATTC
- tgttggg
- - - - - - - - - - -cattcat
- - - - - - - - - - - - - - - - - - -ctgctca