Sequence
atgc intronic sequence ATGC exonic sequenceGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctttaatgatgtttttgtttaagatattgctttatatggatttgctgtgtctgatttgtttgcaactta...
Basic information
species | Glycine max |
transcript | GLYMA08G17450.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G17450.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 5'ss of exon 11
GTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctttaatgatgttttt-gtttaagatattgctttatatggatttgctg-------tgtctgat--ttgtttgcaactta-------------------------------------------
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GTTTCTTTGGAGCTTGGTGGCAATGCACCTTGCATTGTTTTTGATGATGCAGACATTGATGTTGCCATTAAAGGCAGTgtaagcaaaaaaaaaaaagacttatctaccatttcaacatttttttttgtggtgtactttgtttctcattgatatactgaccaacatacatcatcattaattgcattttatattctattatgatgcatgtttatcaacactacttctgttcag
upper sequence: GLYMA08G17450.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G128114_T01 (Zea mays), 5'ss of exon 11
GTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaa---ggacgagaatgcatggtggctttaatgatgtttttgtttaagatattgctttatatggatttgctgtgtctgatttgtttgcaactta
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GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCAGACATTGATGTTGCTGTTAAAGGCAGTgtaagactcacttttacatttatcttctttgtttctttactagcatacaattatataaaatcatctcaagttcccttggtgaatgagggtgacat-tatct--
upper sequence: GLYMA08G17450.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G119482_T01 (Zea mays), 5'ss of exon 11
GTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaag-ttagaaaggacgagaatgcatggtggctttaatgat--gtttttgtttaagatattgctttatatggatttgctgtgtctgatttgtttgcaactta
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GTCTCCTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTCGATGATGCGGACATTGATGTTGCTGTTAAAGGCAGTgtaagactcacttctacatttat-ctttgtttctttactaaacaaatcaagtcatctctagttccctttgtggatgagg-gtgacatagctgtcaagaatgt-
upper sequence: GLYMA08G17450.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv19s0085g00870.t01 (Vitis vinifera), 5'ss of exon 10
GTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaa-aggacg-agaatgcatggtggctttaatgatgtttttgtttaagatattgctttatatg-gatttgctgtgtctgatttgtttgcaactta
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GTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACGGACCTGGGCGTGGCAGTAAAATCAATTgtaagtcagagtaatacacagaaagtgatctggatct--tgatggaattgat-attatcctcatcaatatctgatatatagctttgggatagtgcttgggttt
upper sequence: GLYMA08G17450.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv19s0085g00880.t01 (Vitis vinifera), 5'ss of exon 11
GTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctttaatgatgtttttgtttaagatattgctttatatggatttgctgtgtctgatttgtttgcaactta---
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GTATCTCTGGAACTTGGTGGTAATGCACCTTGCATAATCTTTGACGATGCAGACCTGGAGGTGGCAGTAAAAGGGGCTgtaagttagaattattccctagctatcctgattatactgttggcattacataatagat--gtttgt-tgagttacatgagtaattctatttagcacatcgaaa
upper sequence: GLYMA08G17450.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S279_72V6.2 (Physcomitrella patens), 5'ss of exon 11
GTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaa-aggacgagaatgcatggtggctttaatgatgtttttgtttaagatattgctttatatggatttgctgtgtctgatttgtttg---caactta
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ATATCTCTCGAACTCGGTGGAAATGCACCTCTCATCATTTTTAATGATGCTGACATAGAGATTGCTGTTCAAGGAGCGgtaagcttgcatagcttgatgttttacgataa--ttagtgttctcatttttctatattctggatttcattaattgtct-tgtctgctgtatttggtttgagtt-Mapped 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|16278230|gb|BI942795.1|BI942795EST: TGCATTAGTTTT-GATGATGCTGACCTGNNATGT-GCAGTANAAGGAACT CTTGCAGCAAAGTTCCGTAACAGTGGACAA-CATGTG
genomic: TGCAT-AGTTTTTGATGATGCTGACCTGG-ATGTTGCAGTAAAAGGAACTgtaagttaga ... ttgattgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctttaatgatgtttttgtttaagatattgctttatatggatttgctgtgtctgatttgtttgcaactta
- - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA