Sequence
atgc intronic sequence ATGC exonic sequencegtcttctagataacttatttcaatgattcaatcccttgttatctttgatttatttatctcccaggaaactaaccaatcagttatgaatgtctttcagGCTGCAAGTGAGGAATTAAAGAACAGCCGGTTATTCCTCAAACTCCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGAACTAACCGAGGGG
Basic information
species | Glycine max |
transcript | GLYMA11G05220.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G05220.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g20710.1 (Oryza sativa), 3'ss of exon 3
gtcttctagataacttatttcaatgattcaatcccttgtta--tctttgatttatttatct--cccaggaaactaaccaatcagttatgaatgtctttcagGCTGCAAGTGAGGAATTAAAGAACAGCCGGTTATTCCTCAAACTCCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGAACTAACCGAGGGG
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-caagcgtactaacttttaccatatacagaaattattatgaagtccttaaagtctctcactggctctttttagtagcttaacacttctacttgcttttcagGCAGCTTGTGATGATTTAAAAGGCAGTAGATTGTTCTTAAAACTCCTTGAAGCAGTGCTGAGGACAGGGAACAGAATGAATGTTGGCACAAACCGAGGTG
upper sequence: GLYMA11G05220.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0129g00220.t01 (Vitis vinifera), 3'ss of exon 3
------gtcttctagataacttatttcaatgattcaatcccttgttatctttgatttatttatct-cccaggaaactaaccaatcagttatgaatgtctttcagGCTGCAAGTGAGGAATTAAAGAACAGCCGGTTATTCCTCAAACTCCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGAACTAACCGAGGGG
| | ||||| | || | | ||||| | | | || || | | || || || || | || | | || | | |||||| |||||||||||||| ||||||||||| | ||||| |||||||||||||||||||| ||||||||||| ||||||||||||| || ||| | || |
cctggaatagtgtagattagaaatggctacagatcaattgtctatacttgttccttaagagaactattcatgagac---ctcattatcttccaa-atttgtcagGCAGCAAGTGAGGAATTGAAGAACAGCCGCCTGTTCCTTAAACTCCTTGAAGCTGTTCTCAGGACAGGAAATCGAATGAATGTTGGCACCAACAGGGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgatttatttatctcccaggaaactaaccaatcagttatgaatgtctttcagGCTGCAAGTGAGGAATTAAAGAACAGCCGGTTATTCCTCAAACTCCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGAACTAACCGAGGGG
aactaac putative branch site (score: 1)
tgtctttc putative PPT
atttatttatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcttctagataacttatttcaatgattcaatcccttgttatctttgatttatttatctcccaggaaactaaccaatcagttatgaatgtctttcagGCTGCAAGTGAGGAATTAAAGAACAGCCGGTTATTCCTCAAACTCCTTGAAGCTGTTCTAAGGACAGGAAACAGAATGAATGTTGGAACTAACCGAGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT