Sequence
atgc intronic sequence ATGC exonic sequence...aaagttcattattatatttttctataaactttcacatgttgaacttggggttgaggttttggattcaactaatagccatcttatttggagtgtttttcagGGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATC
Basic information
species | Glycine max |
transcript | GLYMA14G14000.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G14000.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G000393_T02 (Zea mays), 3'ss of exon 7
aaagttcattat-tatatttttctataaactttcacatgttgaacttggggttgaggttttggattcaacta--atagccatcttatttggagtgtt--tttcagGGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATC
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---ttttattgcatttttttgtctatgcagaattttattttggatttcta--tgcctcttgttagtcaactatcaaagtgattttgacttcaatatcaatttcagGGGCCAACAATGGTATGAACCTGAGTGGTGGAAATTTGGAGATTCAAAAAC
upper sequence: GLYMA14G14000.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G25300.1 (Arabidopsis thaliana), 3'ss of exon 8
aaagttcattattatatttttctataaactttcacatgttgaacttggggttgaggttttggattcaactaatagccatcttatttggagt--gtttttcagGGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATC
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---gttcgt-atcatactc-------aactttcataaatttgtgtctttgacagtatagcaaact-aatatatttccatctacatgggtctttgtgtttcagGGGAGGGAAATGGTATGAGCCAGAATGGTGGAAATTTGGGGACGAAAAATC
upper sequence: GLYMA14G14000.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 8
--------------aaagttcattattatatttttctataaactttcacatgttgaacttggggttgaggttttggattcaac----taatagccatcttatttggagtgttt-------ttcagGGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATC
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gttcgtatattctcaactatcttcagttcacataattgagatttcctagctgtgacaattgcc-caaaagtctcataattaacattctcattctcatattaaatgggttgtttcttggtattcagGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATC
upper sequence: GLYMA14G14000.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 8
----aaagttcattattatatttttctataaactttcacatg-ttgaacttggggttgaggttttggattcaactaatagccatcttatttggagtgtttttcagGGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATC
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attttaaattc-ctaatgtattcacctttgatttactgtgagattagacttctgctt----tttagcatttaatatctctctttttttcttggttaatttttcagGGGAAGGCCGTGGTATGAACCTGAATGGTGGAAATTCGGGGATGAGAAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggggttgaggttttggattcaactaatagccatcttatttggagtgtttttcagGGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATC
aactaat putative branch site (score: 2)
tgtttttc putative PPT
atcttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagttcattattatatttttctataaactttcacatgttgaacttggggttgaggttttggattcaactaatagccatcttatttggagtgtttttcagGGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - cacatgt
- - - - - - - - - - - - - - - - - - - - - - - ggggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - ggttttg