Sequence
atgc intronic sequence ATGC exonic sequenceGTTCATGCATGAAAGACTTTGTACTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGTGCTCGAGAAAAAGCTgtgagcatcctagctctgcaatatttaatgtattttctttaagtgtgcttgtttgaggacatgaaaggtagaaatgaaacctgatgcttgtcataataaa...
Basic information
species | Glycine max |
transcript | GLYMA05G31270.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G31270.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G060045_T01 (Zea mays), 5'ss of exon 17
GTTCATGCATGAAAGACTTTGTACTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGTGCTCGAGAAAAAGCTgtgagcatcctagctc-tgcaatatttaatgtattttctttaagtgtgcttgtttgaggacatgaaaggta---gaaatgaaacc-tgatgcttgtcataataaa
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GTTCATGCACTCGAGACTGCGGACACATGCTGAATCAATTGCTTTCTTTGGTGGTGGTTCAAGAGAAAAAGCGgtgagtgccatcattaatacaactcccaaccc-tattctagggttagggtttcccacataaatggatagtgcccaagttcatacaatgagaattgtttagg----
upper sequence: GLYMA05G31270.1 (Glycine max), 5'ss of exon 17
lower sequence: AT4G39850.1 (Arabidopsis thaliana), 5'ss of exon 18
GTTCATGCATGAAAGACTTTGTACTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGTGCTCGAGAAAAAGCTgtgagcatcctagctctgcaatatttaatgtattttctttaagtgtgcttgtttgaggacatgaaaggtagaaatgaaacctgatgcttgtcataataaa-
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GTTTATGCACGAGAGGCTGAACACTCATGCTGAATCTATTGCATTCTTTGGAGGTGGAGCTCGAGAAAAGGCTgtaagtttcttaattgccctagctatagctgctggattttgggtagttatttttgaat-caaagctaccggaagtgaacttggaattgttttatcatttat
upper sequence: GLYMA05G31270.1 (Glycine max), 5'ss of exon 17
lower sequence: AT4G39850.3 (Arabidopsis thaliana), 5'ss of exon 18
GTTCATGCATGAAAGACTTTGTACTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGTGCTCGAGAAAAAGCTgtgagcatccta---gctct-gcaatatttaatgtattttctttaagtgtgcttgt-ttgaggacatgaaaggtagaaatgaaacc---tgatgcttgtcataataaa---------------------------------------------------------------------------------------------
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------------------GAACACTCATGCTGAATCTATTGCATTCTTTGGAGGTGGAGCTCGAGAAAAGGCTGTAAGTTTCTTAATTGCCCTAGCTATAGCTGCTGGATTTTGGGTAgttatttttgaatcaaagctaccggaagtgaacttggaattgttttatcatttatgtgatgatggtcttttcatgtcaaatgtggcttcacttgtgtgagctttaacatgtctcataggtgaatctgctcttattttatttctctccatggagcag
upper sequence: GLYMA05G31270.1 (Glycine max), 5'ss of exon 17
lower sequence: AT4G39850.2 (Arabidopsis thaliana), 5'ss of exon 18
GTTCATGCATGAAAGACTTTGTACTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGTGCTCGAGAAAAAGCTgtgagcatccta---gctct-gcaatatttaatgtattttctttaagtgtgcttgt-ttgaggacatgaaaggtagaaatgaaacc---tgatgcttgtcataataaa------------------------------------------------------------------------------------------
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GTTTATGCACGAGAGGCTGAACACTCATGCTGAATCTATTGCATTCTTTGGAGGTGGAGCTCGAGAAAAGGCTgtaagtttcttaattgccctagctatagctgctggattttgggtagttatttttgaatcaaagctaccggaagtgaacttggaattgttttatcatttatgtgatgatggtcttttcatgtcaaatgtggcttcacttgtgtgagctttaacatgtctcataggtgaatctgctcttattttatttctctccatggagMapped 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|27809152|gb|CB063574.1|CB063574EST: CTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGTGCTCGAGAAAAAGCT ATGGTCGAGTCTAGATTCAGGGAACTTCTCCTCCACTCCAAGTACCTTTTA
genomic: CTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGTGCTCGAGAAAAAGCTgtgagcatcc ... tgttgagcagATGGTCGAGTCTAGATTCAGGGAACTTCTCCTCCACTCCAAGTACCTTTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTCATGCATGAAAGACTTTGTACTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGTGCTCGAGAAAAAGCTgtgagcatcctagctctgcaatatttaatgtattttctttaagtgtgcttgtttgaggacatgaaaggtagaaatgaaacctgatgcttgtcataataaa
- - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaaa