Sequence
atgc intronic sequence ATGC exonic sequencegtagttcttgctagaataatttggtccatagagttctttctgtgattcctcatgccatgtgtactgactattaacctttttcagCCTGAAAGTGTCCGAGAGATAACTGATGTCCTTGATGCCGTAGGAAACACAACCAAAGCTACCACCAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCAT
Basic information
species | Glycine max |
transcript | GLYMA08G24120.4 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G24120.4 (Glycine max), 3'ss of exon 9
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 11
gtagttcttgcta-gaataatttggtccata---gagttctttctgtgattcctcatgccatgtgtactgactattaacctttttcagCCTGAAAGTGTCCGAGAGATAACTGATGTCCTTGATGCCGTAGGAAACACAACCAAAGCTACCACCAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCAT
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---gtatgagtcatgagtggttcgaattatgcctatgttgtatctttgaattttcaagct-tctataa-aacttatcgtgtcttgcagCCAGAAAGTGTCCGTGAGATCACTGATGTTCTTGATGCTGTTGGGAATACCACAAAAGCAACAACAAAAGGGTTTGCTATTGGATCTGCTGCCCTTGCAT
upper sequence: GLYMA08G24120.4 (Glycine max), 3'ss of exon 9
lower sequence: AT1G78920.2 (Arabidopsis thaliana), 3'ss of exon 10
gtagttcttgctagaataatttggtccatagagttctttctgtgattcctcatgccatgtgtactgactattaacctttttcagCCTGAAAGTGTCCGAGAGATAACTGATGTCCTTGATGCCGTAGGAAACACAACCAAAGCTACCACCAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCAT
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---gtaagatgtcacatgatt-ggcttgaaaggctcttatgttccatctttattctatgtagaaataataaatgtttcgtgcagCCAGAGAGTGTCCGTGAGATCACTGATCTTCTTGATGCTGTTGGGAACACCACAAAAGCAACAACGAAAGGGTTTGCCATTGGATCTGCTGCACTTGCAT
upper sequence: GLYMA08G24120.4 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 10
gtagttcttgctagaataatttggtccatagagttctttctgt------gattcctcatgccatgtgt---actgactattaac--ctttttcagCCTGAAAGTGTCCGAGAGATAACTGATGTCCTTGATGCCGTAGGAAACACAACCAAAGCTACCACCAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCAT
|||| || | | | || || ||| ||| | | || | ||| ||| | ||| || || || || |||||||||||||| || ||||| |||||| | |||||||| || || ||||| || |||||||||||||| || || || ||||| || || || || ||||
gtagccattctacaactgaatttttcaataatgttggctgaatcaaaaggaactttagtgctttgtttttaacttgatacaaaatgctcttacagCCTGAAAGTGTTCGGGAGATCACTGATCTTCTTGATGCAGTTGGGAACACCACAAAAGCTACCACCAAGGGATTCGCCATTGGATCCGCGGCACTCGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagttctttctgtgattcctcatgccatgtgtactgactattaacctttttcagCCTGAAAGTGTCCGAGAGATAACTGATGTCCTTGATGCCGTAGGAAACACAACCAAAGCTACCACCAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCAT
tattaac putative branch site (score: 1)
cctttttc CT-rich tract
actattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttcttgctagaataatttggtccatagagttctttctgtgattcctcatgccatgtgtactgactattaacctttttcagCCTGAAAGTGTCCGAGAGATAACTGATGTCCTTGATGCCGTAGGAAACACAACCAAAGCTACCACCAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT