Sequence
atgc intronic sequence ATGC exonic sequenceTCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
Basic information
species | Glycine max |
transcript | GLYMA18G27710.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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ACCTGCCAACTTCCATGTTTACACTGCCCTATTGAAACCACATGAGAGAATCATGGCTTTGGATCTTCCTCATGGTGGACATCTTTCTCACGGCTACCAGgtacat---gggtctggacttcttcattgcctccttactactagttgtttc---agttggcatgcaagcat--aatgcttcct-tccttgttgtctttctttgtcctca-----------------------------------------------------------------------
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G135283_T01 (Zea mays), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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GCCCGCCAACTTCCATGTATACACTGCACTCTTGAAGCCACATGAAAGGATCATGGCTTTGGATCTTCCTCACGGTGGACATCTTTCTCATGGTTACCAGgtacat---gggtctggagtttccttgtacctccaac--tatttttattttgatgctgcacacaagcatg---gatgtttcct-tctctgttgcctttctttcctttct-----------------------------------------------------------------------
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv00s0211g00120.t01 (Vitis vinifera), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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GCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGGTGGACATCTTTCTCATGGCTATCAGgtgcttatga--------ctttcatctagagttcc--ctgctagatataccagtgctttccat-------cttctcagtggctgtctattttgacttattagccatgggaaaa--aaat-------------------------------------------------------------
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv00s0211g00070.t01 (Vitis vinifera), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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GCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAACCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGGTGGACATCTTTCTCATGGCTATCAGgtgcttatga--------ctttcatctagagttcc--ctgctagatatatcggtgctttccat-------cttctcagtggctgtctattttgacttattagccatgggaaaa--aaat-------------------------------------------------------------
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv00s0211g00160.t01 (Vitis vinifera), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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GCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAAGCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGGTGGACATCTTTCTCATGGCTATCAGgtgcttatga--------ctttcatctagagttcc--ctgctagatataccagtgctttccat-------cttctcagtggctgtctattttgactttttagccatgggaaaa--aaat-------------------------------------------------------------
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv00s0211g00100.t01 (Vitis vinifera), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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GCCTGCAAATTTTCAAGTTTACACTGCACTATTAAAACCTCATGAAAGAATTATGGCACTTGATCTTCCTCATGGTGGACATCTTTCTCATGGCTATCAGgtgcttatga--------ctttcatctagagttcc--ctgctagatatatcggtgctttccat-------cttctcagtggctgtctattttgacttcttagccatgggaaaa--aaat-------------------------------------------------------------
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S79_54V6.1 (Physcomitrella patens), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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CCCAGCCAATTTTCAGGTCTACACAGCTCTCTTAAAGCCACACGAGCGCATAATGGCCTTAGATCTTCCTCATGGTGGTCATTTGTCTCATGGATATCAGgtgt-----gattcctaataaactctacctgtaccatcttttgccactcgcctcagagcgtcaattattatgta----ccgctgctaaagatagctt---atttatttatgtat--agctgatgttttctccacttgccttacatc-tactggctctgttgt-ctgacatgg-taaacag
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S21_270V6.1 (Physcomitrella patens), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcat-ttcatcttataatcaaatctatagtgtgtata---tggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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GCCAGCAAACTTTCAGGTGTACACAGCTCTCCTGAAGCCACATGAGCGGATCATGGCGTTGGATCTTCCTCATGGTGGCCACTTGTCTCATGGATATCAGgtacgtct----tctggttttct---attcatgcccaatttatacttgcttgtggtatttgctcaaactgaatatcctaagatggttgccattcttact---acgtatctgcacgtttctccacaatcatgaatttattcacacttcatgcttttcatggcaaacag-----------------
upper sequence: GLYMA18G27710.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ32604 (Selaginella moellendorffii), 5'ss of exon 6
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgta-----cttttgaagtttgaacttccac--cattcat-ttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
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TCCAGCAAACTTTCAAGTGTATACAGCTTTGCTTAAACCACACGAAAGAATTATGGCTCTTGATTTACCTCACGGAGGCCATTTATCTCATGGTTATCAGgtaggcaacctttggctttagaagctaagcggcattcttctttattttgca--cag------------------------------------------------------------------------------------------------------------------------------------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|208277881|gb|GE074888.1|GE074888EST: CACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAG ACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCA
genomic: CACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttga ... aactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTGCAAATTTCCATGTCTACACTGCATTGCTTAAACCTCATGAAAGAATCATGGCACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA