Sequence
atgc intronic sequence ATGC exonic sequence...taatatatcaaaattgaaatcatattttcatgattttttttctttacacaggattatataatcagtgttgttgatattcattttgttttaaactttgtagGTTGGTTCGTATCATGCATCTTCATTATTGGTAGCATCCAGACCTCCAACTCCCGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
Basic information
species | Glycine max |
transcript | GLYMA17G05280.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05280.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------taatatatcaaaattgaaatcatattttcatgattttttttctttacacaggattatataat-cagtgt-tgttgatattcattttgttttaaactttgtagGTTGGTTCGTATCATGCATCTTCATTATTGGTAGCATCCAGACCTCCAACTCCCGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
||| ||||||||| ||| |||| ||||| | | | || | | || | | || | ||||| | || ||| | ||||||||||||| ||||| ||||| |||| |||||||| || |||||||||| || ||| | ||||| | ||| ||| | |||||| | | |||||||
gttagtgtttcctatcatctttgattaaaccatcaaaattatgtgttggaagtcaaacttttgcacttttactaatcagtttacggtacggtatgcatatatggtaattttttattttactgt-cagGTTGGTTCGTACCATGCTTCTTCTCTATTAGTAGCATCGAGGCCTCCAACTCGTGGTGTTGTGAGTCGGGCAATCGGTCTTGAAGGTTTCACAAGTGTCT
upper sequence: GLYMA17G05280.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 7
--taatatatcaaaattgaaatcatattttcatgatttttt-ttctttacacaggattatataatcagtgttgttgatattcattttgttttaaactttgtagGTTGGTTCGTATCATGCATCTTCATTATTGGTAGCATCCAGACCTCCAACTCCCGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
|| | | || || ||| | | | | || | | || | || | || | ||| || | |||| | ||| |||| || || ||||||||||| || ||| |||| |||||||| |||||||| || || ||||||||||| || |||||| | |||||| ||||||||||||
tcccatttgttcttatcaaatagatagtcaaggaaaaaaaaatcccttcctgattgtttctttttccatttttctttctttctttctttttttacctt---agGTGGGCTCCTATCATGCATCATCGTTACTGGTGGCATCCAGGCCTCCAACCCCAGGTGTTCTTAGTCGTGGCATTGGTCTTGAAGGTATTTCTAGTGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acacaggattatataatcagtgttgttgatattcattttgttttaaactttgtagGTTGGTTCGTATCATGCATCTTCATTATTGGTAGCATCCAGACCTCCAACTCCCGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
tgttgat putative branch site (score: 4)
atattcattttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatatatcaaaattgaaatcatattttcatgattttttttctttacacaggattatataatcagtgttgttgatattcattttgttttaaactttgtagGTTGGTTCGTATCATGCATCTTCATTATTGGTAGCATCCAGACCTCCAACTCCCGGAGTTCTTAGTCGAGGAATTGGTTTGGAAGGTCTTTCTAGTGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - ttcatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttgttg