Sequence
atgc intronic sequence ATGC exonic sequencegttgttattttattatttccttgatgcatttttgataatttggttgattgggtggtacatctatgttttgtaattgcagGGATCAACTCTTTTAAGTTTTTCATGGCATACAAAGGAATTCTTATGATCAATGATGAGCTTCTTCTGAAAGGATTTAAAAAATGCAAGTCTCTTGGTGC
Basic information
species | Glycine max |
transcript | GLYMA02G44690.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G44690.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G020002_T03 (Zea mays), 3'ss of exon 4
-------------------gttgt-tattttattatttccttgatgcatttt-tgataatttggttgattgggtggtacatctatgttttgtaattgcagGGATCAACTCTTTTAAGTTTTTCATGGCATACAAAGGAATTCTTATGATCAATGATGAGCTTCTTCTGAAAGGATTTAAAAAATGCAAGTCTCTTGGTGC
|| | ||| | || | || | | | | | || || | || || | ||| | |||||||||||| || ||||| ||||||||||||||||| ||||| | ||| | | |||||| || || ||| |||| | ||||||||||| ||||||||
tttgatagcttggtgcatgactgcatggtttttagattttgaagtagatcctattaaatatcaatttatatcttattaaatacaaatttcgaaattgcagGGATAAATTCTTTCAAGTTTTTCATGGCATATAAAGGCTCCTTGATGGTTACTGATGACCTCCTCCTGCAAGGCCTACGGAAATGCAAGTCGCTTGGTGC
upper sequence: GLYMA02G44690.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------------------gttgttattttattatttccttgatgcatttttgataatttggttgattgggtggtacatctatgttttgtaattgcagGGATCAACTCTTTTAAGTTTTTCATGGCATACAAAGGAATTCTTATGATCAATGATGAGCTTCTTCTGAAAGGATTTAAAAAATGCAAGTCTCTTGGTGC
||| | | | | || || | ||| || ||| | ||| | |||| | || |||| ||||||||||||||||||||| |||| ||||| || ||| |||||||||||||||||||| || | ||||| |||||||||||||||||||||||
gttagctgtttttttcaagtttattataataactctacatagattatgacttgatctacattggcaaatgtaaaccccatttggattcttctctaaatctgtatgaaatccttacttgtct-tcttttcaacttacagGCATCAACTCTTTTAAGTTTTTCCTGGCCTACAAGGGGGCTCTCATGATCAATGATGAGCTTCTACTTGAGGGATTAAAAAAATGCAAGTCTCTTGGTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcatttttgataatttggttgattgggtggtacatctatgttttgtaattgcagGGATCAACTCTTTTAAGTTTTTCATGGCATACAAAGGAATTCTTATGATCAATGATGAGCTTCTTCTGAAAGGATTTAAAAAATGCAAGTCTCTTGGTGC
tatgttttgtaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgttattttattatttccttgatgcatttttgataatttggttgattgggtggtacatctatgttttgtaattgcagGGATCAACTCTTTTAAGTTTTTCATGGCATACAAAGGAATTCTTATGATCAATGATGAGCTTCTTCTGAAAGGATTTAAAAAATGCAAGTCTCTTGGTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT