Sequence
atgc intronic sequence ATGC exonic sequencegtaaaagaaattcagtatggtcttcccgagtaaataaaattattgaatctcatacttattcaaatttgtttacattcctgtagAAACTTGCAGTCCAATGGGTTGACTGGTAGGCTACCTCCTGAGCTTGGAAACTTGAGATACCTTCAAGAACTTCAGCTGGATAGGAATAGGCTTCAAGGA
Basic information
species | Glycine max |
transcript | GLYMA11G02690.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02690.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os04g58700.2 (Oryza sativa), 3'ss of exon 4
gtaaaa-gaaattcagtatggtctt----cccgagtaaataaaattattgaatctcatacttattcaaatt-----tgtttacattc-----ctgtagAAACTTGCAGTCCAATGGGTTGACTGGTAGGCTACCTCCTGAGCTTGGAAACTTGAGATACCTTCAAGAACTTCAGCTGGATAGGAATAGGCTTCAAGGA
|||| | | | | | || | | | | || | | | || | |||| ||| | || || ||||| |||||||||||| || ||||||||||||||||| | ||||| | ||||| || || | | ||| | || | |||| || ||||| || |||||
gtaagatgccaattgatttgcttatatattcagggttttcctgtctctggtgcttctttgctattgaaactaaggctgctttcattcatctgctgtagAAACTTTCATTCCAATGGGTTGACTGGGAATATACCTTCAGAGCTGGGCAAGCTACAGAATCTTGTTCAGCTGAGGTTGGACAGAAATAGACTGAAAGGA
upper sequence: GLYMA11G02690.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G63430.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaaagaaattcagtatggtcttcccgagtaaataaaattattgaatctcat---------acttattcaaa--------tttgtttacat-tcctgtagAAACTTGCAGTCCAATGGGTTGACTGGTAGGCTACCTCCTGAGCTTGGAAACTTGAGATACCTTCAAGAACTTCAGCTGGATAGGAATAGGCTTCAAGGA
|||| | | ||||| | | | | | || | | | | |||| || | || || | | ||| ||| || | | || ||| | ||||||||||| |||||||| | | | ||| | ||||| || ||||||| |||||| ||||||||| | || ||||||||||||||||||
gtaataaagattcatctt--tttcgcagtcaaagtgatgctttcatatcttattaacagatgagttgttgagacgacagtttttcttttcacattttacagCAACCTTCAGTCCAATGGTTTGACTGGAAAGTTGCCTGCAGAGCTCGGTAACTTGAAGTACCTTAGAGAACTTCATATTGACAGGAATAGGCTTCAAGGA
upper sequence: GLYMA11G02690.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g03700.t01 (Vitis vinifera), 3'ss of exon 4
gtaaaagaaattcagtat--ggtcttcccgagtaaa---taaaattattgaatctcatacttattcaaatttgtttacattcct-gtagAAACTTGCAGTCCAATGGGTTGACTGGTAGGCTACCTCCTGAGCTTGGAAACTTGAGATACCTTCAAGAACTTCAGCTGGATAGGAATAGGCTTCAAGGA
||||||| |||| || ||| | || | | ||| || | |||| || | ||| || ||| || | | |||||| | ||||||||||||||| ||| | || |||||||||||||| ||||||||| |||| | || |||| |||||||||||| |||||| |||||
gtaaaaggaatttgacattgggtttgatggatttgactttaaggtttgatattctcttatctgatcag-ttcacttatgttttttgcagAAACCTCGAGTCCAATGGGTTGAGTGGACGCCTGCCTCCTGAGCTTGGCAACTTGAGACACCTCGAGGAGCTTCGGCTGGATAGGAACAGGCTTGAAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaaataaaattattgaatctcatacttattcaaatttgtttacattcctgtagAAACTTGCAGTCCAATGGGTTGACTGGTAGGCTACCTCCTGAGCTTGGAAACTTGAGATACCTTCAAGAACTTCAGCTGGATAGGAATAGGCTTCAAGGA
cattcct CT-rich tract
ataaaattattgaatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaagaaattcagtatggtcttcccgagtaaataaaattattgaatctcatacttattcaaatttgtttacattcctgtagAAACTTGCAGTCCAATGGGTTGACTGGTAGGCTACCTCCTGAGCTTGGAAACTTGAGATACCTTCAAGAACTTCAGCTGGATAGGAATAGGCTTCAAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA