Sequence
atgc intronic sequence ATGC exonic sequence...ctttagtccatttgtttggggaatgatagtaaaagagttgcatttttgtgctactctggctggataacttctgactatttttgtacactgaggtatgcagGCCTTGGCAATAAAGACGTGCAATCGGGTGTGTCAGTGGGTAAAAGATGTGGAAAATGAAATATTTTTGCTAGGAGCTAGCCCCTTTTCATGGTGATTTT
Basic information
species | Glycine max |
transcript | GLYMA12G29450.2 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G29450.2 (Glycine max), 3'ss of exon 13
lower sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 13
----------ctttagtccatttgtttggggaatgata-gtaaaagagttgcatttttgtgctactctggctggataacttctgactatttttgtacactgaggtatgcagGCCTTGGCAATAAAGACGTGCAATCGGGTGTGTCAGTGGGTAAAAGATGTGGAAAATGAAATATTTTTGCTAGGAGCTAGCCCCTTTTCATGGTGATTTT
||||| | || | | | | ||| || | || || | ||| | |||| || | | || | | | | | | | |||| |||| ||||||| ||||||| |||||| || |||||||||||||||| |||||| | || |||| ||||||||| || || || ||||||| |
gtgagagattctttaaa--actttctgatgaagtcatatatatatagcttaaatcgaagaaatacac-----ggatctctgataatgatactgatgaaatcatatg-gtagGCGATGGCGATAAAGATATGCAATCAGGTGTGCCAAAGGGTAAAAGATGTGGAGAATGAAGTGTTCTTGCAAGGAGCTAGTCCTTTCTCTTGGTGATAAT
upper sequence: GLYMA12G29450.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 13
---ctttagtccatttgtttggggaatgatagtaaaagagttgcatttttgtgctactctggctggataacttctgactatttttgtacactgaggtatgcagGCCTTGGCAATAAAGACGTGCAATCGGGTGTGTCAGTGGGTAAAAGATGTGGAAAATGAAATATTTTTGCTAGGAGCTAGCCCCTTTTCATGGTGATTTT
| | | | ||| | | | | | || |||| || || | | || | || || | | | || ||| | ||||||||||||| ||| ||||||||| ||||| ||||| |||||||| ||||| |||||||| || || ||| | ||||| ||||||||||||||||||||||
gcacaagaatgtagttgataatgccaaggaatctcaactgttgatttagcatgttgc-ctttttctatgcaatccaatttctgatggacat--gattttgcagGCCTTGGCGATACGGACGTGCAACCGGGTCTGTCAATGGGTAAAGGATGTTGAAAATGAGATTTTCTTGTTGGGAGCAAGCCCCTTTTCATGGTGATTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtgctactctggctggataacttctgactatttttgtacactgaggtatgcagGCCTTGGCAATAAAGACGTGCAATCGGGTGTGTCAGTGGGTAAAAGATGTGGAAAATGAAATATTTTTGCTAGGAGCTAGCCCCTTTTCATGGTGATTTT
ttctgac putative branch site (score: 2)
tatttttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttagtccatttgtttggggaatgatagtaaaagagttgcatttttgtgctactctggctggataacttctgactatttttgtacactgaggtatgcagGCCTTGGCAATAAAGACGTGCAATCGGGTGTGTCAGTGGGTAAAAGATGTGGAAAATGAAATATTTTTGCTAGGAGCTAGCCCCTTTTCATGGTGATTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT