Sequence
atgc intronic sequence ATGC exonic sequenceACTTAGTTTTGGAGAAGCAATTGCTAAAAGCAAGAGATCACCTGAAAAGTTATTTGTACTTTTGGACATGTACGAAATATTGCAAGAGATACATTCAGAGgtattaacttttaacatccaaattcatgaatctctctgctactttctgtaattctgtccactgtgaagatttcataaatcttaattgggttatatatata...
Basic information
species | Glycine max |
transcript | GLYMA20G17500.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os12g06270.1 (Oryza sativa), 5'ss of exon 6
ACTTAGTTTTGGAGAAGCAATTGCTAAAAGCAAGAGATCACCTGAAAAGTTATTTGTACTTTTGGACATGTACGAAATATTGCAAGAGATACATTCAGAGgtatt-----aacttttaacatccaaattcatg-aatctctctgctactttctgtaattctg--tccactgtgaagatttcataaatcttaattgggttatatatata
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TCTCAGTTTTGGAGATGCTGTTGCTAAAAGTAAAAGATCACCTGAAAAATTATTTGTATTGCTAGACATGTATGAAGTAATGCATGAACTCCAGCCAGAGgtatgttggaaataatttatacagaactgcaaggaaaagttcatatattcagttgcatcctagttttgccgtgtggtaattatataccaaatggaagttg--------
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os11g05880.1 (Oryza sativa), 5'ss of exon 6
ACTTAGTTTTGGAGAAGCAATTGCTAAAAGCAAGAGATCACCTGAAAAGTTATTTGTACTTTTGGACATGTACGAAATATTGCAAGAGATACATTCAGAGgtat--------taacttttaacatccaaattcatgaat--ctctctgctactttctgtaattctgtccactgtgaagatttcataaatcttaattgggttatatatata-------------------------------------------------
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TCTAAGCTTTGGAGATGCCGTTGCTAAAAGCAAAAGGTCTCCTGAAAAGTTGTTTGTATTGCTAGACATGTACGAAGTAATGCATGAACTTCAACCCGAGgtattctggaagttatttgttgagacctgactcctgcatgatttactcattctttcacttccacaattagcttgtgagacttttcatgtcgttatggttttctcttcactatgaagactacaaaatttcaaccctatgcttgtttgaacttgttaccag
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 5'ss of exon 6
ACTTAGTTTTGGAGAAGCAATTGCTAAAAGCAAGAGATCACCTGAAAAGTTATTTGTACTTTTGGACATGTACGAAATATTGCAAGAGATACATTCAGAGgtattaacttttaacatc-caaattcatgaatctctctgctactttctg--taattctgtccactgtgaagatttcataaatcttaattgggttatatatata-
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ACTTAGTTTTGGTGAGGCTATTGCTAGAAGCAAGAGATCCCCAGAAAAATTATTTGTGCTTCTAGACATGTATGAGATAATGCGGGAACTTCACTCAGAGgtatga----ttaatgccacatatccataaaccatgcactgggttcatgactggttggcataacattaatgggacctagggagaagagccaggcacaaacatctMapped 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|10847570|gb|BF071573.1|BF071573EST: GATACATTCAGAG ATTGAAATACTCTTTAAAGGCAGAGCTTGCACTAAAATAAGAGAAGCTGTA
genomic: GATACATTCAGAGgtattaactt ... taatttgcagATTGAAATACTCTTTAAAGGCAGAGCTTGCACTAAAATAAGAGAAGCTGTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTTAGTTTTGGAGAAGCAATTGCTAAAAGCAAGAGATCACCTGAAAAGTTATTTGTACTTTTGGACATGTACGAAATATTGCAAGAGATACATTCAGAGgtattaacttttaacatccaaattcatgaatctctctgctactttctgtaattctgtccactgtgaagatttcataaatcttaattgggttatatatata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctgc