Sequence
atgc intronic sequence ATGC exonic sequence...ttaatttgtatataggatgggttctaggtttttctgttatggagaatttcttgtgttctctctttcatcttttttgcccttttaatattgacttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATTGACAGTATTTCTTTCTCAACTGATGGGACTTACATAGCTACTGTTGGACGAGATG
Basic information
species | Glycine max |
transcript | GLYMA13G20240.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G20240.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G53390.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------------------------------------------------ttaatttgtatataggatgg--gttctagg---tttttctgttatggagaatttcttgtgttctct------ctttcatcttttttgcccttttaatattgacttt--tgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATTGACAGTATTTCTTTCTCAACTGATGGGACTTACATAGCTACTGTTGGACGAGATG
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gtatgtgagtatgcaaccatttcaattgatccttatataggtgcgggaagcacatggtacatgcatatcctctactagtatcatcatttgctagtggttataagaaattattgtattacatactttcttttctatctttgagcatattttgatgtactattgtttattcatatgagtattcatgcagAGTAATCCTGTTGCGAGATGGCATATATGTCAAGGTTCAATTAACAGCATTGCATTCTCAAATGATGGGGCACACTTGGCAACTGTTGGAAGAGATG
upper sequence: GLYMA13G20240.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 6
----ttaatttgtatataggatgggt-tctaggtttttctgttatggagaatttcttgtgttctctctttcatcttttttgcccttttaatattgacttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATTGACAGTATTTCTTTCTCAACTGATGGGACTTACATAGCTACTGTTGGACGAGATG
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tcctttaacttttagagatgccatatgtagaaggaaaagtactacg-----cctttagaatttccacctgtcctatctttgcttacatattgtcatttgatgcagAGTAACCCAATTGCCAGATGGCATATTTGCCCAGGTTCAATTAATGGTGTTACTTTCTCAACTGATGGAGCCTATATTGCAACAGTCGGAAGAGATGMapped 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|9204238|gb|BE330462.1|BE330462EST: TTGTCAAAGATCAAACACAATTTTCTGTTTCCCATGCACGTTACAGTAAG AGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATTGACAGTATT
genomic: TTGTCAAAGATCAAACACAATTTTCTGTTTCCCATGCACGTTACAGTAAGgtatcgagtt ... acttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATTGACAGTATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcttgtgttctctctttcatcttttttgcccttttaatattgacttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATTGACAGTATTTCTTTCTCAACTGATGGGACTTACATAGCTACTGTTGGACGAGATG
tattgac putative branch site (score: 2)
cttttgc CT-rich tract
ttttaatattgacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaatttgtatataggatgggttctaggtttttctgttatggagaatttcttgtgttctctctttcatcttttttgcccttttaatattgacttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATTGACAGTATTTCTTTCTCAACTGATGGGACTTACATAGCTACTGTTGGACGAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - ggatggg
- - - - - - - - - - - - - - - - - tgttatg