Sequence
atgc intronic sequence ATGC exonic sequencegtaccttgataggcaagcatgaccatctactaatttgtattaattgcaaattttttcttttctatgcagttattaactggatttagtatttatatacagCATTGGTTTGACAGACAGGGAGGAGGGTGACTTAGGACCTGTTTATGGGTTTCAGTGGAGGCACTTTGGAGCCAA
Basic information
species | Glycine max |
transcript | GLYMA11G12280.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G34570.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaccttgataggcaagcatgaccatctactaatttgtattaattgca-aattttttcttttctatgcagttattaactggatttagtatttatatacagCATTGGTTTGACAGACAGGGAGGAGGGTGACTTAGGACCTGTTTATGGGTTTCAGTGGAGGCACTTTGGAGCCAA
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------------gtaaacttta--attcagcatttttctttcacaacttgaagctttgtggccattacactgataaattgaa---agtttttaatttcagTATTGGACTGACTGAGAGAGAGGAAGGTGACCTTGGACCCGTTTATGGATTTCAGTGGAGACACTTTGGTGCTAA
upper sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 5
gtaccttgataggcaagcatgaccatctactaatttgtattaattgcaaattttttcttttctatgcagttattaactggatttagtatttatatacagCATTGGTTTGACAGACAGGGAGGAGGGTGACTTAGGACCTGTTTATGGGTTTCAGTGGAGGCACTTTGGAGCCAA
|| | ||| | | | | | | || || | | | | || || ||| | | ||| |||||||||||||| ||||| ||||| ||||| ||||| | |||||||| |||||||| |||||||| ||||
------------------------------------gt-tctattttagaactgctttgtcctgcagggtaactta-tatatcta-tatgt---tgcagTATTGGTTTGACAGATAGGGAAGAGGGGGACTTGGGACCCATATATGGGTTCCAGTGGAGACACTTTGGTGCCAG
upper sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 7
gtaccttgataggcaagcatgaccatctactaatttgtattaattgcaaattttttcttttctatgcagttattaac--tggatttagtatt-tatata-cagCATTGGTTTGACAGACAGGGAGGAGGGTGACTTAGGACCTGTTTATGGGTTTCAGTGGAGGCACTTTGGAGCCAA
||||| || |||| || | || | |||| || | | | || |||| || ||| | ||| | |||| | ||| ||| ||||| ||| |||||||||| ||||||||||| ||||| | |||||||| ||||||||||||||||| || |
------------gcaag--tggttgtctatccatatctact--ttgctaaactggtgtgtttcgtgcaattcttactgatatattcaatattctctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaaattttttcttttctatgcagttattaactggatttagtatttatatacagCATTGGTTTGACAGACAGGGAGGAGGGTGACTTAGGACCTGTTTATGGGTTTCAGTGGAGGCACTTTGGAGCCAA
tattaac putative branch site (score: 1)
ttattaactggattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccttgataggcaagcatgaccatctactaatttgtattaattgcaaattttttcttttctatgcagttattaactggatttagtatttatatacagCATTGGTTTGACAGACAGGGAGGAGGGTGACTTAGGACCTGTTTATGGGTTTCAGTGGAGGCACTTTGGAGCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG