Sequence
atgc intronic sequence ATGC exonic sequence...tcttgcttcttttgatatttatctaatgctggacaaccatttagtatctcaagctactattctgcctactcatgtattataacttgttcacatttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAGACCCTGAAGTATTTTTATCTTCTCTTCTCACCTTCTTCTGTCATCCCAT
Basic information
species | Glycine max |
transcript | GLYMA07G02290.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 13
-----tcttgcttcttttgatatttatctaatgctggacaaccatttagtatctcaagctactattctgcctactcatgtattataacttg-ttcacatttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAGACCCTGAAGTATTTTTATCTTCTCTTCTCACCTTCTTCTGTCATCCCAT
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gtaagtttcgagccgggctgaccttaaccaatcagataccctcctcgagtgggcctttccatctttcggaa-acacgt-tgttaacgtttgcttcttcattttcagGTCAATACAGGTGCTAAAGACAACAAGATGCAAAGCTTCTTCTTAGCTGAGACTCTTAAGTATCTATATCTTCTCTTTTCGCCTTCATCTGTTATTTCAT
upper sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 13
tcttgcttcttttgatatttatctaatgctgg-acaaccatttagtatctcaagctactattctgcctactcatgtattataacttgttcacat-ttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAGACCCTGAAGTATTTTTATCTTCTCTTCTCACCTTCTTCTGTCATCCCAT
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-cttggctgtgcgggttatcattttctttcattgttactttcttttgtttactgctacatctgtgc-tctttgcttactctgctggttctgggtattcacagGTAAATAGCGGTGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGACGGTCATTTCAT
upper sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0054g00230.t01 (Vitis vinifera), 3'ss of exon 8
tcttgcttcttttgatatttatctaatgctgg-acaaccatttagtatctcaagctactattctgcctactcatgtattataacttgttcacat-ttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAGACCCTGAAGTATTTTTATCTTCTCTTCTCACCTTCTTCTGTCATCCCAT
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-cttggctgtgctggttatcattttctttcattgttactttcttttgtttactgctacatctgtgc-tctttgcttactctgctggttctgggtattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCATMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|7924044|gb|AW830052.1|AW830052EST: CTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGAT GTTAATAGTGGAGTCAAAGACAACATGATGCANAGCTTCTTTCTTGCGGAG
genomic: CTTTTGAGAAGAACTCCCGGATAGAGTCAGGCTATGTTGGACTGAAGGATgtaagcaaac ... catttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctcaagctactattctgcctactcatgtattataacttgttcacatttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAGACCCTGAAGTATTTTTATCTTCTCTTCTCACCTTCTTCTGTCATCCCAT
ttataac putative branch site (score: 2)
catttctc putative PPT
atgtattataactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttgcttcttttgatatttatctaatgctggacaaccatttagtatctcaagctactattctgcctactcatgtattataacttgttcacatttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAGACCCTGAAGTATTTTTATCTTCTCTTCTCACCTTCTTCTGTCATCCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- -tgcttct
- - - - - - - - - - - - - tgctgga
- - - - - - - - - - - - - - - - -caaccat
- - - - - - - - - - - - - - - - - - - - - - - - - - gctacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgttc