Sequence
atgc intronic sequence ATGC exonic sequenceCACAGGCGCGCTCCGGAGAAGTCTGAAGAAGAAGAAGAGTTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtacttttttgtttctcgacaatgtgtttgattctcgtataataaccattaattgttgctttgtttattttatttatcttttcattgttgttcatc...
Basic information
species | Glycine max |
transcript | GLYMA11G05990.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G05990.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g27840.1 (Oryza sativa), 5'ss of exon 3
CACAGGCGCGCTCCGGAGAAGTCTGAAGAAGAAGAAGAGTTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtacttttttg-tttctcgacaatgtgtttgattctcgtataataaccattaattgttgctttgtttattttatttatcttttcattgttgttcatc
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CCTTTCCGGGTCCAAGAGAAGTCTGAAGAAGAGGAAGAGTTAGAGGAGTTTGTTAATTTTGAACGTTACCGGGATTTGATTAAGCATCGACGTAGAGGATgtcggtacctttttggtttctctgctatattgctattatttgtaggagtttgctgtctttgttcattttcttttgtgcttattggtttgtcttggcgcat-
upper sequence: GLYMA11G05990.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G022061_T03 (Zea mays), 5'ss of exon 3
CACAGGCGCGCTCCGGAGAAGTCTGAAGAAGAAGAAGAGTTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtacttttttg-tttctcgacaatgtgtttgattctcgtataataaccattaattgttgctttgtttattttatttatcttttcattgttgttcatc--
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CCTTTTCGAGTCCAAGGGAAATCTGAAGAAGAGGAAGAGTTAGAGGAATTTGTTAATTTTGAACGTTACCGGGATTTGATTAAGCATCGTCGCAGAGGATgtcggtacctttttggtttctctgttctattgctgttgct-gtagaaatttcatatcttgca--tccatttacatcacttgagggattgtcctaatgcacact
upper sequence: GLYMA11G05990.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G022061_T05 (Zea mays), 5'ss of exon 3
CACAGGCGCGCTCCGGAGAAGTCTGAAGAAGAAGAAGAGTTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtacttttttg-tttctcgacaatgtgtttgattctcgtataataaccattaattgttgctttgtttattttatttatcttttcattgttgttcatc---------------------------------------------------------------------------------------------
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CCTTTTCGAGTCCAAGGGAAATCTGAAGAAGAGGAAGAGTTAGAGGAATTTGTTAATTTTGAACGTTACCGGGATTTGATTAAGCATCGTCGCAGAGGATgtcggtacctttttggtttctctgttctattgctgttgct-gtagaaatttcatatcttgca--tccatttacatcacttgagggattgtcctaatgcacactttatttgtttctaaattggtacagaaaaagggtgctatttcttaattcaaagcactagttaactgaacatttacctagcttcttttcacag
upper sequence: GLYMA11G05990.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G022061_T01 (Zea mays), 5'ss of exon 3
CACAGGCGCGCTCCGGAGAAGTCTGAAGAAGAAGAAGAGTTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtacttttttg-tttctcgacaatgtgtttgattctcgtataataaccattaattgttgctttgtttattttatttatcttttcattgttgttcatc---------------------------------------------------------------------------------------------
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----TTCGAGTCCAAGGGAAATCTGAAGAAGAGGAAGAGTTAGAGGAATTTGTTAATTTTGAACGTTACCGGGATTTGATTAAGCATCGTCGCAGAGGATGTCGgtacctttttggtttctctgttctattgctgttgct-gtagaaatttcatatcttgca--tccatttacatcacttgagggattgtcctaatgcacactttatttgtttctaaattggtacagaaaaagggtgctatttcttaattcaaagcactagttaactgaacatttacctagcttcttttcacag
upper sequence: GLYMA11G05990.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G36980.3 (Arabidopsis thaliana), 5'ss of exon 3
CACAGGCGCGCTCCGGAGAAGTCTGAAGAAGAAGAAGAGTTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtacttttttg------tttctcgacaatgtgtttgattctcgtataataaccattaattgttgctttgtttattttatttatcttttcattgttg-ttcatc----------------------------------
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AGTGTACGTCCACATAAGAAAACGGAAGAGGAAGAAGAACTTGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTGATTAAGCATCGGCGTAGAGGATgtcggtacctttttaactacattttcttccgataaatttgtttctttttt--cgatctttgaat-caaatttaagggaaaaaacagtcgtagaatcgaaaattcgagtaactgagacaagggtcactgggataatgaacag
upper sequence: GLYMA11G05990.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv07s0031g00640.t01 (Vitis vinifera), 5'ss of exon 3
CACAGGCGCGCTCCGGAGAAGTCTGAAGAAGAAGAAGAGTTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtacttttttg--tttctcgacaatgtgtttgattctcgtataataaccattaattgttg--ctttgtttat-tttatttatcttttcattgttgttcatc-----------------------------------------------------------------------------------------
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CATTTTCGGGCCCAACAGAAAACCGAGGAAGAGGAAGAATTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATTAAGCATCGACGTAGAGGATgtcggtacttttttgatttttttgatcatgtgttaaattcttgaactttatcaaatgtcttttctcctttacccatgtctttttatgtttaaaagatggggggaaaaaaaaccttctcatccatctttggaataatattatattaagggattcatgtaatttcagttttacaagcttagttctgcttgtaacagMapped 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|208208775|gb|GE002653.1|GE002653EST: TGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGAT G
genomic: TGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtactt ... atcttaacag-
EST:
gi|208208775|gb|GE002653.1|GE002653EST: TGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGAT G
genomic: TGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtactt ... atcttaacag-
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACAGGCGCGCTCCGGAGAAGTCTGAAGAAGAAGAAGAGTTAGAAGAGTTTGTTAATTTTGAGCGTTATCGGGATTTAATAAAGCATCGCCGTAGAGGATgtcggtacttttttgtttctcgacaatgtgtttgattctcgtataataaccattaattgttgctttgtttattttatttatcttttcattgttgttcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT