Sequence
atgc intronic sequence ATGC exonic sequenceAAGGGAACTGGGTTTTACATTCTCATTTCCAGTGAAGCAAACATCCATAGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAGGATGCGgtaattcttgttaccttgattatttttttttagtattctatctgccttgccttgccattctgtctttttctcatctccttttgatcatgattgtgatgca...
Basic information
species | Glycine max |
transcript | GLYMA07G12190.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G12190.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g52450.2 (Oryza sativa), 5'ss of exon 3
AAGGGAACTGGGTTTTACATTCTCATTTCCAGTGAAGCAAACATCCATAGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAGGATGCGgtaattcttgttaccttgattatttttttttagt----attctatct---gccttgccttgccattctgtctttttctcatctccttttgatcatg-attgtgatgca---------------------------------------------------------------------------------------
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AAGAGAACTAGGTTTTACATTCTCCTTTCCAGTGAAACAAAAATCATTGGCATCTGGCACTCTTATCAAGTGGACGAAGAGTTTTGCAATTGATGAAATGgtcagttttgttacctcacatatgtaaaccaaatgaaaatcctaaggaaggatatccagcttcattgtgaatttaaaaaaaaaacatgtcgtcctggatggaaattcaccaattgtgaattctcttttagttctgttatatcttatatatccaattagttgtgtataacatacttacttgttgctttgaaggcag
upper sequence: GLYMA07G12190.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G856653_T01 (Zea mays), 5'ss of exon 3
AAGGGAACTGGGTTTTACATTCTCATTTCCAGTGAAGCAAACATCCATAGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAGGATGCGgtaattcttgttaccttgattatttttttttagtattctatctgccttgcct-tgccattctgtctttttctcatctccttttgatcatgattgtgatgca----
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GAGGGAACTGGGTTTCACCTTTTCTTTCCCAGTGCACCAAACATCTATATCATCGGGGACTCTAATTAAGTGGACCAAAGGATTTTGCATCAATGGCACGgtaaaaacaagaatac-----atttgttcctactttgttgactatattacttatacttatttatattaccagtgccttggccagaagctgactatgctgccaaga
upper sequence: GLYMA07G12190.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G171373_T01 (Zea mays), 5'ss of exon 3
AAGGGAACTGGGTTTTACATTCTCATTTCCAGTGAAGCAAACATCCATAGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAGGATGCGgta------attcttgttaccttgattattttttttt-agtattctatctgccttgccttgccattctgtctttttctcatctcct-tttgatcatgattgtgatgca
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AAGACAACTTGGTTTTACATTCTCCTTTCCAGTGAAGCAAAATTCAGTTGCATCTGGCACTCTTATCAAATGGACAAAGGGTTTTGCAATTGATGAAATGgtatgatcagttcttgtagcctactttatgtattgaagactaatttaagaatatgggcctgtt-tcaggagtagaacaaatgccatgtttcatcctgtcaa-------
upper sequence: GLYMA07G12190.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv11s0016g03070.t01 (Vitis vinifera), 5'ss of exon 3
AAGGGAACTGGGTTTTACATTCTCATTTCCAGTGAAGCAAACATCCATAGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAGGATGCGgt-aattcttgttaccttgattatttttt----tttagtattctatctgcc-ttgccttgccattctgtctttttctcatctccttttgatcatgattgtgatgca
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AAGGGAACTGGGTTTTACTTTCTCATTTCCAGTTAGACAATCATCAATTTCATCGGGCTCCCTCATTAAATGGACAAAGGGATTCTCAATAGAAGACGCGgttaatcctagttaccttgatccttgtttgcaatctaatattgatcctgccattctcttctccagttgtttttttttttttttcccccttaaattattga------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|9899703|gb|BE608671.1|BE608671EST: CATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAGGATGCG GTTGGAGAAGATGTGGTGGGTGGACTAACCAAGTACTTAGATAAAATTGGT
genomic: CATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAGGATGCGgtaattcttg ... ttgtttgtagGTTGGAGAAGATGTGGTGGGTGGACTAACCAAGTCCTTAGAAAAAATTGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGGGAACTGGGTTTTACATTCTCATTTCCAGTGAAGCAAACATCCATAGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAGGATGCGgtaattcttgttaccttgattatttttttttagtattctatctgccttgccttgccattctgtctttttctcatctccttttgatcatgattgtgatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG