Sequence
atgc intronic sequence ATGC exonic sequenceTTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagttacttaattcagacattcaacttatgataaaataaatgtataaaaataaattattttgtaatgattgtgaagattataggtgtgacattaaata...
Basic information
species | Glycine max |
transcript | GLYMA17G26440.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G26440.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g17350.2 (Oryza sativa), 5'ss of exon 6
TTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagt-tacttaattcaga--cattcaacttatgataaaataaatgtataaaaataaattattttgtaatgattgt---gaagattataggtgtgacattaaata-----
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CCTAGCAGAAATTCAGAATGCACGAGGCATCATGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAGgtatttatattgtatccggagttatttaaatccttgtaaaattactgatttatatcaaaatatgttattaggattctccctatgtttcttgaactgacattggatatgcag
upper sequence: GLYMA17G26440.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os06g22650.1 (Oryza sativa), 5'ss of exon 6
TTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagttactta-attcagacattcaacttatgat---aaaataaatgtataaaaataaattattttgtaatgattgtg-aagattataggtgtgacattaaata---------------------------------------
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TTTGACAGAAATCCAGAATGCACGTGGTGTCATGGATGTTCTTTCAGAGATGTTGAATGCTATTGATCCTGGCAACAGAGAGgtaattttcctgtacattgcagttcatataatgttcagaaaggtactgcagagaaaaaagatccattccatttctagtgtaggatctttttgataaaattggatatttttgctgccaagatgctaaaatgtaatgaatacacag
upper sequence: GLYMA17G26440.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G053925_T01 (Zea mays), 5'ss of exon 6
TTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagttact----taattcagacattcaacttatgataaaataaatg------tataaaaataaattatt--ttgtaatgattgtgaagattatagg----tgtgacattaaata---------------------------------------------------------------------------------
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CCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAGgtactttcctgatgcacctgtggctattgtgccatcataaaattaattatgccttataataaggaagaattgctggtaaccatcttcatcatttcatgaaattttgtttcaaaacaatctacttgcagtgcaatatttctaaattgtacttgcagtgcaagatttcaaatcaatctacttaccgtgccagatttcag
upper sequence: GLYMA17G26440.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G077844_T01 (Zea mays), 5'ss of exon 6
TTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagtt--acttaattcagacattcaacttatgataaaataaatgtataaaaat----aaattattttgtaatgattgtgaagattataggtgtgacattaaata
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CTTGACAGAAATTCAGAATGCACGTGGGGTCATGGATGTTCTTTCAGAGATGTTAAATGCTATCGATCCTGGTAACAGAGAGgtattttctaccttgtgcttacttacccttgataattacacacgtctagtaaaatcatgagatgaccttcccattttccttgcgaattta--ttttctttta----
upper sequence: GLYMA17G26440.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv04s0008g03720.t01 (Vitis vinifera), 5'ss of exon 6
TTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagttacttaattcagacattcaacttatgataaaataaatgtataaaaataaattattttgtaatgattgtgaagattataggtgtgacattaaata-----
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TTTGACAGAAATTCAGAATGCACGAGGTATTATGGATGTCCTTGCAGAAATGCTGAGTGCATTAGATCCAGGAAACAAAGAGgtatatt-tgcaatttaaaa---tgaaggaaaagaagaaaagtacattggtgtcatatgatatataaatactgtaaatactctatac-cgttattaaatgtgtcaMapped 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|16105990|gb|BI893730.1|BI893730EST: TGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAA GGGATTAGACAGGAGGTTATTGCTGATTTGGTGGAGCAGTGTCGAACTTAC
genomic: TGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagttact ... ttactttcagGGGATTAGACAGGAGGTTATTGTTGATTTGGTGGAGCAGTGTCGAACTTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagttacttaattcagacattcaacttatgataaaataaatgtataaaaataaattattttgtaatgattgtgaagattataggtgtgacattaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataaa