Sequence
atgc intronic sequence ATGC exonic sequence...tcaaaattgaaatcatattttcatgattatgttttctatatgcagaattatataatcactttatgtgttgttgatattcattttgttttaaattttgtagGTTGGTTCGTATCATGCTTCTTCATTATTGGTAGCATCCAGACCTCCAACTCCTGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
Basic information
species | Glycine max |
transcript | GLYMA12G30670.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G30670.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 7
------------------------tcaaa--attgaaatcatattttcatgattatgttttctatatgcagaattatataatcactttatgtgttgttgatat--tcattttgttttaaattttgtagGTTGGTTCGTATCATGCTTCTTCATTATTGGTAGCATCCAGACCTCCAACTCCTGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
| ||| || |||| || | || | | ||| | | | | || | || || | || |||| | ||||| | || | | | ||||||||||||| ||||||||||| |||| |||||||| || |||||||||| ||| ||| | ||||| | ||| ||| | |||||| | | |||||||
gttagtgtttcctatcatctttgattaaaccatcaaaattatgtgttggaagtcaaacttt-tgcacttttactaatcagtttacggtacggtatgcatatatggtaattttttattttactgt-cagGTTGGTTCGTACCATGCTTCTTCTCTATTAGTAGCATCGAGGCCTCCAACTCGTGGTGTTGTGAGTCGGGCAATCGGTCTTGAAGGTTTCACAAGTGTCT
upper sequence: GLYMA12G30670.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 7
tcaaaattgaaatcat-attttcatgattatgttttctatatgcagaattatataatcactttatgtgttgttgatattcattttgttttaaattttgtagGTTGGTTCGTATCATGCTTCTTCATTATTGGTAGCATCCAGACCTCCAACTCCTGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
|| | ||| | || | | || | | | | | | || | |||| | || || | | ||| |||| | ||||| || || |||||||| || || ||| |||| |||||||| |||||||| || || ||||||||||| || |||||| | |||||| ||||||||||||
tcccatttgttcttatcaaatagatagtcaaggaaaaaaaaatcccttcctgattgtttctttttccatttttctttctttctttctttttt-taccttagGTGGGCTCCTATCATGCATCATCGTTACTGGTGGCATCCAGGCCTCCAACCCCAGGTGTTCTTAGTCGTGGCATTGGTCTTGAAGGTATTTCTAGTGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattatataatcactttatgtgttgttgatattcattttgttttaaattttgtagGTTGGTTCGTATCATGCTTCTTCATTATTGGTAGCATCCAGACCTCCAACTCCTGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
tgttgat putative branch site (score: 4)
ttgttgatattcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaaaattgaaatcatattttcatgattatgttttctatatgcagaattatataatcactttatgtgttgttgatattcattttgttttaaattttgtagGTTGGTTCGTATCATGCTTCTTCATTATTGGTAGCATCCAGACCTCCAACTCCTGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - -ttcatga
- - - - - - - - - - - - - - - - - - tatatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttgttg