Sequence
atgc intronic sequence ATGC exonic sequence...accaataaacatggctgttttactgtcttttgatgcattggttatgtgtgtgttgcatggtgtgtattggttgttgattagagtttgtgtatttgagcagTGGATTTGGCTACTGGGTGTTATGAACATGCCTGTAGTAAATTCCCAAGTAACTTGGAACTAATGATGGGGCTGTTTAATTGCTATGTTCGAGAGTACTC
Basic information
species | Glycine max |
transcript | GLYMA11G29640.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G29640.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g27870.1 (Oryza sativa), 3'ss of exon 2
accaataaacatggctgttttactgtcttttgatgcattggttatgtgtgtgttgcatggtgtgtattggttgttgattaga-gtttgtgtatttg-agcagTGGATTTGGCTACTGGGTGTTATGAACATGCCTGTAGTAAATTCCCAAGTAACTTGGAACTAATGATGGGGCTGTTTAATTGCTATGTTCGAGAGTACTC
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-----------------gtacgtttgcacttggtcttttgattatatctccttagcatcttatttttttccc-tgaattatttatgcatatgtttgtaccagTGGATCTTGCTACTTCATGCTATGAGTATGCTTGTACAAAGTACCCCAATAACTTGGAGTTAATGATGGGCCTTTTTAATTGCTATGTCAGAGAGTACTC
upper sequence: GLYMA11G29640.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G442057_T01 (Zea mays), 3'ss of exon 2
accaataaacatggctgttttactgtct-tttgatgcattggttatgtgtgtgttgcatggtgtgtattggttgttgattagagtttgtgtatttgagcagTGGATTTGGCTACTGGGTGTTATGAACATGCCTGTAGTAAATTCCCAAGTAACTTGGAACTAATGATGGGGCTGTTTAATTGCTATGTTCGAGAGTACTC
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------gtgcgtttgtacttgctcatttattttatccatttaacattattactgtagtttatctctaatttttgtc-atgatcatgaccatgctaatgcagTGGATCTTGCTACTTCATGCTATGAGTATGCCTGTACAAAGTATCCAAGTAACTTGGAATTAATGATGGGGCTTTTTAATTGCTATGTTCGAGAGTACTC
upper sequence: GLYMA11G29640.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G58450.1 (Arabidopsis thaliana), 3'ss of exon 4
accaataaacatggctgttttactgtcttttgatgcattggttatgtgtgtgttgcatggtgtgtattggttgttgattagagtttgtgtatttgagcagTGGATTTGGCTACTGGGTGTTATGAACATGCCTGTAGTAAATTCCCAAGTAACTTGGAACTAATGATGGGGCTGTTTAATTGCTATGTTCGAGAGTACTC
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----gtaagtgcacacgtataaaagaagaatttgaaagctgttgtat---tacttcttggtatatctaaattgcttgtt--------ttaatttgattagTGGACTTGGCTACTAGTTGTTATGCTCATGCCTGTGGCAAATACCCTAATAATTTGGAGCTTATGATGGGGCTCTTCAATTGCTATGTTCGCGAATATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtgtgttgcatggtgtgtattggttgttgattagagtttgtgtatttgagcagTGGATTTGGCTACTGGGTGTTATGAACATGCCTGTAGTAAATTCCCAAGTAACTTGGAACTAATGATGGGGCTGTTTAATTGCTATGTTCGAGAGTACTC
tgttgat putative branch site (score: 4)
ttgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accaataaacatggctgttttactgtcttttgatgcattggttatgtgtgtgttgcatggtgtgtattggttgttgattagagtttgtgtatttgagcagTGGATTTGGCTACTGGGTGTTATGAACATGCCTGTAGTAAATTCCCAAGTAACTTGGAACTAATGATGGGGCTGTTTAATTGCTATGTTCGAGAGTACTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
-ccaataaa
- - - - -catggct
- - - - - - - - - - tactgtc
- - - - - - - - - - - - - - - tgatgca
- - - - - - - - - - - - - - - - - - - - - - -gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - gcatggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtttgtg