Sequence
atgc intronic sequence ATGC exonic sequence...gctgcgggataaagtaattatacagttgtgcgttcttagtcatttcatagataaggatatcccagaaagatgattactaacttgtagcattcctttgcagGTGTGATTCTGCTTTTGTATCAGGTGTCACGTTAATGCTGTTTTCTTGTGTTGTATGGTTAAAATTGGTGTCTTATGCACATACAAACTATGATATGAGA
Basic information
species | Glycine max |
transcript | GLYMA17G06120.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G06120.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G19450.1 (Arabidopsis thaliana), 3'ss of exon 5
gctgcgggataaagtaattatacagttgtgcgttcttagtcatttcatagataaggatatcccagaaagatgattactaacttgtagcattcctttgcagGTGTGATTCTGCTTTTGTATCAGGTGTCACGTTAATGCTGTTTTCTTGTGTTGTATGGTTAAAATTGGTGTCTTATGCACATACAAACTATGATATGAGA
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-----gtgatactgt--ttttctggtctcagtttgtgatactgtttttaagtttagttgtctgaccc-ggtgatcttgaaaatgga-----------cagGTGTGATTCTGCTTTTTTATCAGGTGTCACTTTGATGCTCCTCACTTGCATTGTGTGGCTAAAGTTGGTTTCTTATGCTCATACTAGCTATGACATAAGA
upper sequence: GLYMA17G06120.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g01930.t01 (Vitis vinifera), 3'ss of exon 5
gctgcgggataaagtaattatacagttgtgcgttcttagtcatttcatagataaggatatcccagaaag-atgattactaacttgtagcattcc----tttgcagGTGTGATTCTGCTTTTGTATCAGGTGTCACGTTAATGCTGTTTTCTTGTGTTGTATGGTTAAAATTGGTGTCTTATGCACATACAAACTATGATATGAGA
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----ccatgtaacttgacc-tgttgtaatgcattctcctttgttaaagatacgaaaaaaagtggtagaacatgatttatttactatatggttctaaattgtgcagGTGTGATTCAGCTGTTCTCTCTGGTGTCACACTAATGCTCTTTGCTTGCATTGTGTGGTTAAAATTGGTATCTTTTGCACATACAAATTATGACATGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catagataaggatatcccagaaagatgattactaacttgtagcattcctttgcagGTGTGATTCTGCTTTTGTATCAGGTGTCACGTTAATGCTGTTTTCTTGTGTTGTATGGTTAAAATTGGTGTCTTATGCACATACAAACTATGATATGAGA
tactaac putative branch site (score: 0)
cattccttt putative PPT
attactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctgcgggataaagtaattatacagttgtgcgttcttagtcatttcatagataaggatatcccagaaagatgattactaacttgtagcattcctttgcagGTGTGATTCTGCTTTTGTATCAGGTGTCACGTTAATGCTGTTTTCTTGTGTTGTATGGTTAAAATTGGTGTCTTATGCACATACAAACTATGATATGAGA
gctgcgg
- - - - - - - - - - - - - - tgcgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccagaa