Sequence
atgc intronic sequence ATGC exonic sequence...ttgaggatgtttgcctctctgttgaagatattgaaaactctttggtttttttattattattattattattgaactttgtggttttatggcttttatatagCTGCGAAAATTGGGGAGGGGATTTTATTAGATCATGGGACAGGTGTGGTTATTGGTGAAACTGCTATTGTTGGAAACAGAGTTTCACTGATGCAT
Basic information
species | Glycine max |
transcript | GLYMA01G36460.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G36460.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g04140.1 (Oryza sativa), 3'ss of exon 5
ttgaggatgtttgcctctctgttgaagatattgaaaactctttggtttttttattattattattattattgaactttgtggttttatggcttt-tatatagCTGCGAAAATTGGGGAGGGGATTTTATTAGATCATGGGACAGGTGTGGTTATTGGTGAAACTGCTATTGTTGGAAACAGAGTTTCACTGATGCAT
| | | | || | ||| | || || | | | | | || || || | | |||| ||| ||||| || | | ||| || | |||||| ||||| || || || |||||||| || ||| | ||||||||||||||||| |||||||||||| | |||||| | |||||
cagtgaagttatgaacatttgtggtttatcttttatgccttatcatgttcccttttttcccact-ttatcttccttacattctttattactaaatctgcagCGGCCAGAATTGGAGAGGGAATATTGTTGGATCATGGAACGGGTCTAGTTATTGGTGAAACTGCCATTGTTGGAAACTGGGTTTCATTAATGCAG
upper sequence: GLYMA01G36460.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G048740_T03 (Zea mays), 3'ss of exon 5
ttgaggatgtttgcctctctgttgaagatattgaaaactctttggtttttttattattattattattattgaactttgtggttttatggcttt--tatatagCTGCGAAAATTGGGGAGGGGATTTTATTAGATCATGGGACAGGTGTGGTTATTGGTGAAACTGCTATTGTTGGAAACAGAGTTTCACTGATGCAT
|| | | | || || || | | | | ||| || | | ||| || || | ||| ||||| | ||| || |||||| |||||||| ||||| || || || |||||||| |||||| | || ||||||||||||||| | ||||||||| | |||||| | |||||
-tgtgaaatccaaatgtttgattatttatttttttaggttgtatgctttgatact-taattttttttgtgtgtcttcagtgttttttatttttaacatgcagCTGCCAAAATTGGCGAGGGAATATTGTTGGATCATGGAACAGGTCTAGTCATTGGTGAAACTGCTGTAGTTGGAAACTGGGTTTCATTAATGCAG
upper sequence: GLYMA01G36460.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0210g00190.t01 (Vitis vinifera), 3'ss of exon 5
ttgaggatgtttgcctct--ctgttgaagatattgaaaactctttggtt--tttttattattat-tattattattgaactttg--tggttttatggcttttatatagCTGCGAAAATTGGGGAGGGGATTTTATTAGATCATGGGACAGGTGTGGTTATTGGTGAAACTGCTATTGTTGGAAACAGAGTTTCACTGATGCAT
|||| | | | || | |||| || | ||| | | | | ||| | | ||| || ||| | ||| | || | || |||||| ||||||| |||| || | | ||||||| ||||| |||||||| |||||||||||| |||| ||||| ||||||||| | |||||
-------tgttggtttgtagctatgcgagatgacaaaggtttcctggatgatatccactatgagatgaaatttttcctttttaattaaatttggtgattctgtacagCTGCACAAATTGGAGAGGAAATACTTCTGGATCATGCAACAGGCGTGGTTATAGGTGAAACTGCTGTTGTAGGAAATAGAGTTTCATTAATGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttattattattattattattgaactttgtggttttatggcttttatatagCTGCGAAAATTGGGGAGGGGATTTTATTAGATCATGGGACAGGTGTGGTTATTGGTGAAACTGCTATTGTTGGAAACAGAGTTTCACTGATGCAT
cttttat CT-rich tract
ttattattattattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaggatgtttgcctctctgttgaagatattgaaaactctttggtttttttattattattattattattgaactttgtggttttatggcttttatatagCTGCGAAAATTGGGGAGGGGATTTTATTAGATCATGGGACAGGTGTGGTTATTGGTGAAACTGCTATTGTTGGAAACAGAGTTTCACTGATGCAT
- gaggatg
- - - - - - -cctctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttgtg