Sequence
atgc intronic sequence ATGC exonic sequence...gtgttgttggggcagtctctttccattcattatttatttctgctcttatttttgtttcattttgattatatatgtgtttaacatttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCTGTACAGCCAGTCTCTAAAGATTC
Basic information
species | Glycine max |
transcript | GLYMA11G16460.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 10
-----gtgttgt-tggggcagtctctttccattcattatttatttctgctcttatttttgtttcattttgattatatatgtgtt-taacatttgtcttggtca-tcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCTGTACAGCCAGTCTCTAAAGATTC
|| | | | || | | | | | | || || |||| | | | ||| |||| | | | |||| | | | || | | ||||| ||||| ||||| || || ||||| || ||||||||||| || ||||| |||||||| || || ||||| |||||||| || ||||| || ||||||||
gtacagtaaaatattcttccgtacttgttcgaacttaacataatt-tgcttctctggggatgaaattctgatattgtgtttgttgttgggtcaattttcctaaatcagGTGATACATTTACGGATGGATCAGTCAAGTACACAATGACATCGATGAACGTTCCTGAACCTGTTATGTCCTTAGCTGTTCAACCAGTTTCAAAAGATTC
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 10
gtgttgttggggcagtctctttccattcattatttatttctgctcttatttttgtttcattttgat-tatatat------gtgtttaacatttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCTGTACAGCCAGTCTCTAAAGATTC
|| || || || || | || ||| | | |||| | |||| | | || | || ||||||| | | ||| | || | || ||||||||| |||||||||||||| || ||||| | |||||| ||||| |||||||||||||| || || || |||||||||||| | || || ||||| |||||
----tgatgcttcattccaattttgcttat-attgctctttgct-tcatttgtttcatatatatatatatatatttcatgatatctaa-acttctttttgtcatcagGTGATACTTTTACTGATGGGTCAGTGAGATACACCATGACCTCTATGAATGTTCCAGAACCGGTCATGTCATTAGCTATTTCACCCGTTTCTAAGGATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttttgtttcattttgattatatatgtgtttaacatttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCTGTACAGCCAGTCTCTAAAGATTC
gtttaac putative branch site (score: 3)
tttgtctt CT-rich tract
attttgattatatatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgttgttggggcagtctctttccattcattatttatttctgctcttatttttgtttcattttgattatatatgtgtttaacatttgtcttggtcatcagGAGATACTTTTACTGACGGTTCAGTTAAATACACAATGACTTCTATGAATGTTCCTGAGCCAGTGATGTCATTAGCTGTACAGCCAGTCTCTAAAGATTC
- - tgttggg
- - - - - - - - - - - ccattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgtgt