Sequence
atgc intronic sequence ATGC exonic sequence...tagcatgatatcagtggatttatgaattatgtaatggttcctaaaagaaaaggcaatagtggtgattctattgtaattaatttattctcattgcctgcagGTATAACTGCTGCTTCTGGAATAGCAGCTGAGCTGGGAATTCCATTAACACACCGTGGCATTGCAAATAGTGTGAGATTCCTCACAGGGCATTCAAGGAA
Basic information
species | Glycine max |
transcript | GLYMA15G42510.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G42510.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G40850.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------tagcatgatatcagtgga-tttatgaattatgtaatggttcctaaaagaaaaggcaatagtggtgattctattgtaattaatttattctcattgcctgcagGTATAACTGCTGCTTCTGGAATAGCAGCTGAGCTGGGAATTCCATTAACACACCGTGGCATTGCAAATAGTGTGAGATTCCTCACAGGGCATTCAAGGAA
||| || | | | |||| | || | ||| || || | | || | | |||| || || || || |||||| |||||||| || || || |||||||| ||| |||| |||||| ||||||| || || |||||| |||||| || || ||||| || |||||||||||
gtaatgtttgtttgttatcatgctgtacattcatcattctactccagtttacgcatatgattgtggcctcttgt-gatctcgtgctgctga-aactttattttatcgaagtttgcgattatgattgcagGGATAACTGCGGCGTCGGGGATAGCAGCAGAGTTGGGGATTCCACTAACACATCGAGGTGTTGCAACTAGTGTAAGGTTTCTCACTGGTCATTCAAGGAA
upper sequence: GLYMA15G42510.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0064g01470.t01 (Vitis vinifera), 3'ss of exon 3
tagcatgatatcag--tggatttatgaattatgtaatggttcctaaaagaaaaggcaatagtggtgattctattgtaattaatttattctcattgcctgcagGTATAACTGCTGCTTCTGGAATAGCAGCTGAGCTGGGAATTCCATTAACACACCGTGGCATTGCAAATAGTGTGAGATTCCTCACAGGGCATTCAAGGAA
| | || || | || | |||||| | | | | || || | | | || |||| || |||||| ||||| ||||| || ||||||||||| |||||||| || |||||||| ||| | || |||||||||||||| ||||| || |||||||| ||||||||
agaagtagtcccaaactgtacttttctgttatgtttacacttgtgtgccttagattgctttagggtatagtggtatgat--attttcctcacttctttgcagGCATAACCGCTGCATCGGGAATAGCAGCAGAGCTGGGGATCCCATTAACTCACAGGGGTATTGCAAATAGTGTTAGATTTCTAACAGGGCACTCAAGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaaaaggcaatagtggtgattctattgtaattaatttattctcattgcctgcagGTATAACTGCTGCTTCTGGAATAGCAGCTGAGCTGGGAATTCCATTAACACACCGTGGCATTGCAAATAGTGTGAGATTCCTCACAGGGCATTCAAGGAA
aattaat putative branch site (score: 3)
ttctcatt putative PPT
attctattgtaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagcatgatatcagtggatttatgaattatgtaatggttcctaaaagaaaaggcaatagtggtgattctattgtaattaatttattctcattgcctgcagGTATAACTGCTGCTTCTGGAATAGCAGCTGAGCTGGGAATTCCATTAACACACCGTGGCATTGCAAATAGTGTGAGATTCCTCACAGGGCATTCAAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- gcatgat
- - - - - - - - - - - - - - - - - tggttcc
- - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -agtggtg