Sequence
atgc intronic sequence ATGC exonic sequence...gtattaattttgtctaaatatatattcatttaaggtctaaattctaccttgaataagttttggtttgtttgaagtctgactcttaattgtaattctgtagGTTGATCAAATGGTTATTCATTCTGCTTCAGATTTTCGGCCACGGACAACTCTCTGTGGTGATTACTTTTATAATTATTTTACTCGTGGTCTGGACATCT
Basic information
species | Glycine max |
transcript | GLYMA01G37380.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G37380.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G51130.1 (Arabidopsis thaliana), 3'ss of exon 9
---------------------------------------------------gtattaattttgtcta--aatatatattcatttaaggtctaaattctac-cttgaataagttttggtttgtttgaagtctgactcttaattgtaattctgtagGTTGATCAAATGGTTATTCATTCTGCTTCAGATTTTCGGCCACGGACAACTCTCTGTGGTGATTACTTTTATAATTATTTTACTCGTGGTCTGGACATCT
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gtgatctataccgtatctctaaacttgtttgtatatcacgatcagatgcttccattagcttctcttactatgttacctgcgttatctgttacagttcaatactcaactggacatttgtatttctgcttctgaattgtcctttgc---tttccagGTAGATCAAATGGTTATTCATTCTGCGTCAGATCCTCGACCAAAAACAACTATCTGTGGTGATTACTTTTACAACTATTTTACTCGTGGTTTGGACATCC
upper sequence: GLYMA01G37380.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 9
-----gtattaattttgtctaaatatatattcatttaaggtctaaattctaccttgaataagttttggtttgtttgaagtctgactcttaattgtaattctgtagGTTGATCAAATGGTTATTCATTCTGCTTCAGATTTTCGGCCACGGACAACTCTCTGTGGTGATTACTTTTATAATTATTTTACTCGTGGTCTGGACATCT
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tttaaactttatatatgcttaatccaatgtcttctgagtatttattatttatgttacctat-tgatggtattgatggagggtgatt-ttgcttgtaac---acagGTTGACCAAATGGTAATTCACTCTGCCTCAGATCCTCGCCCACGGACAACTCTCTGTGGTGATTACTTCTACAATTATTTTGATCGTGGTTTGGACATAC
upper sequence: GLYMA01G37380.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S58_197V6.2 (Physcomitrella patens), 3'ss of exon 9
gtattaattttgtctaaatatatattcatttaaggtctaaattctaccttgaataagttttggt-ttgtttgaagtctgactcttaattgtaattctgtagGTTGATCAAATGGTTATTCATTCTGCTTCAGATTTTCGGCCACGGACAACTCTCTGTGGTGATTACTTTTATAATTATTTTACTCGTGGTCTGGACATCT
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gtaagagttttcctcttttctttattcggttgctggttgcacataagtcggaaagatacttaccattcctcgtgcttcttttcctgtacgacattgt-tagGTTGACCCTATGGTGATCCATTCTGCCTCTGATCCAAAACCTCGCACTGCACTCTGTGGTGATTATTTTTATAATTATTTCACACGCGGCATTGATATCTMapped 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|15661878|gb|BI699249.1|BI699249EST: GATGTCTGGACTGAGCTTGGACGTCCCTGTGGCATTCATCAAAAGCAG GTTGATCAAATGGTTATTCATTCTGCTTCAGATTTTCGTCCACGGACAACT
genomic: GATGTCTGGACTGAGCTTGGACGTCCCTGTGGCATTCATCAAAAGCAGgtagccatac ... aattctgtagGTTGATCAAATGGTTATTCATTCTGCTTCAGATTTTCGGCCACGGACAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accttgaataagttttggtttgtttgaagtctgactcttaattgtaattctgtagGTTGATCAAATGGTTATTCATTCTGCTTCAGATTTTCGGCCACGGACAACTCTCTGTGGTGATTACTTTTATAATTATTTTACTCGTGGTCTGGACATCT
tcttaat putative branch site (score: 3)
tcttaattgtaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattaattttgtctaaatatatattcatttaaggtctaaattctaccttgaataagttttggtttgtttgaagtctgactcttaattgtaattctgtagGTTGATCAAATGGTTATTCATTCTGCTTCAGATTTTCGGCCACGGACAACTCTCTGTGGTGATTACTTTTATAATTATTTTACTCGTGGTCTGGACATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgactc