Sequence
atgc intronic sequence ATGC exonic sequencegttagtttcattctattatttcttatacctgttattttcatttaattttgatttaagatgaaatgaaactgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGACGTTTATAGCTACGGGGTTGTCTTGCTGGAACTGTTGACCGGAAGGAAA
Basic information
species | Glycine max |
transcript | GLYMA10G01520.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G01520.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g14932.1 (Oryza sativa), 3'ss of exon 6
---gttagtttcattctattatttcttatacctgttattttcatttaattttgatttaagatgaaatgaaactgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGACGTTTATAGCTACGGGGTTGTCTTGCTGGAACTGTTGACCGGAAGGAAA
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gtaagcaggttgaccaccttgaagtactccccagatgtttctgctctgcttttgcttcatat--agctgtcgtgcttt-cagGTATGTAGCACCAGAGTATGCAATGACAGGACACTTGCTTGTAAAAAGCGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGG
upper sequence: GLYMA10G01520.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
gttagtttcattctattatttcttatacctg--ttattttcatttaattt--tgatttaagatgaaatgaaactgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGACGTTTATAGCTACGGGGTTGTCTTGCTGGAACTGTTGACCGGAAGGAAA
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gtttgtcatactctctcatcttttgtccttaacttagtattacctagtttaatgtgtagtaatgttactaaattggtttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG
upper sequence: GLYMA10G01520.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ26603 (Selaginella moellendorffii), 3'ss of exon 4
gttagtttcattctattatttcttatacctgttattttcatttaattttgatttaagatgaaatgaaactgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGACGTTTATAGCTACGGGGTTGTCTTGCTGGAACTGTTGACCGGAAGGAAA
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---------------------------gtaggaatctctttttcgtattcgctactactgatgtt---tctttgcacagATATGTTGCTCCAGAGTACGCGATGACTGGACACTTACTTGTGAAAAGCGACGTCTACAGCTATGGCGTAGTCTTGCTTGAGTTGCTCTCCGGGAGAAAGMapped 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|16997015|gb|BM086387.1|BM086387EST: CCCGAAGGCAGGGCTAATTATCTATCTACTAGAGTCATGGGAACATTTGG GTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGA
genomic: CCCGAAGGCAGGGCTAATTATCTATCTACTAGAGTCATGGGAACATTTGGgttagtttca ... tgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGA
EST:
gi|9565162|gb|BE474671.1|BE474671EST: CCCGAAGGCAGGGCTAATTATCTATCTACTAGAGTCATGGGAACATTTGG GTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGA
genomic: CCCGAAGGCAGGGCTAATTATCTATCTACTAGAGTCATGGGAACATTTGGgttagtttca ... tgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacctgttattttcatttaattttgatttaagatgaaatgaaactgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGACGTTTATAGCTACGGGGTTGTCTTGCTGGAACTGTTGACCGGAAGGAAA
ttttgat putative branch site (score: 4)
ttattttcatttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtttcattctattatttcttatacctgttattttcatttaattttgatttaagatgaaatgaaactgttatgtagGTATGTAGCGCCCGAGTATGCCATGACCGGACACCTACTTGTTAAAAGCGACGTTTATAGCTACGGGGTTGTCTTGCTGGAACTGTTGACCGGAAGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA