Sequence
atgc intronic sequence ATGC exonic sequence...attgactattgagtgagaatgttttctaattggtcgtttctatagaagcttaattaattttatggtattactaaaaaaaattcttcatatatgcttgtagAGTGAAGATGGGGATATCATTGATTGCATTGACATTAATAAGCAACCAGCTTTTGATCATCCTGCATTGAAAGGTCACAAAATCCAG
Basic information
species | Glycine max |
transcript | GLYMA17G34970.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G34970.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0008g00670.t01 (Vitis vinifera), 3'ss of exon 1
attgactattgagtgagaatgttttctaattggtcgttt---ctatagaagcttaattaattttatggtattactaaaaaaaattcttcatatat-gcttgtagAGTGAAGATGGGGATATCATTGATTGCATTGACATTAATAAGCAACCAGCTTTTGATCATCCTGCATTGAAAGGTCACAAAATCCAG
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tgcgcttggtttgatagaaagttacagaactctgtttttacattatacaagttcacggagttt---ggcatcactaaccatt-ctcagagtatattacttgtagAGTGAAGATGGGGATATCATTGACTGCATTGACATTTACAAGCAGCCAGCTTTTGATCATCCTGCTCTAAAGAACCACACCATCCAG
upper sequence: GLYMA17G34970.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0008g00670.t01 (Vitis vinifera), 3'ss of exon 8
attgactattgagtgagaat--gttttctaattggtcgtttctatagaagcttaattaattttatggtattactaaaaaaaattcttcatatatgcttgtagAGTGAAGATGGGGATATCATTGATTGCATTGACATTAATAAGCAACCAGCTTTTGATCATCCTGCATTGAAAGGTCACAAAATCCAG----------
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-ggagctttcaatagaagattcgatatttagcatgaaaatcggacagagaaatttctggttt-atggtatgaatagaaaattaatttcatggttggttgtagAGTGAAGATGGAGATATTATCGACTGTGTTGACATTCACAAGCAACCCGCTTTAGATCATCCTGCACTGAAAAAGCACATTATTCAGGTTTGTCTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcttaattaattttatggtattactaaaaaaaattcttcatatatgcttgtagAGTGAAGATGGGGATATCATTGATTGCATTGACATTAATAAGCAACCAGCTTTTGATCATCCTGCATTGAAAGGTCACAAAATCCAG
tactaaa putative branch site (score: 1)
taattaattttatggt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgactattgagtgagaatgttttctaattggtcgtttctatagaagcttaattaattttatggtattactaaaaaaaattcttcatatatgcttgtagAGTGAAGATGGGGATATCATTGATTGCATTGACATTAATAAGCAACCAGCTTTTGATCATCCTGCATTGAAAGGTCACAAAATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - -tgagtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa