Sequence
atgc intronic sequence ATGC exonic sequenceTCATACAGCCTCTATTGCAGCTGGAAGAAATGGAATTCCTGTGAGGATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgaggaatgacgccccccctaattgttcaacttctgatgaaaaccgggaagtacttgatgtttttttgtcttcag
Basic information
species | Glycine max |
transcript | GLYMA09G06640.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G06640.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os06g48650.3 (Oryza sativa), 5'ss of exon 4
TCATACAGCCTCTATTGCAGCTGGAAGAAATGGAATTCCTGTGAGGATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgaggaatgacgccccccctaattg-----ttcaacttctgatgaa--aaccgggaa--gtacttgatgtttttttgtcttcag---------------
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TCATACAGCAGCAATTGCTGCTGGAAATAATGGGATTCCAGTACGAATGCATGGTCACGAATTTGGCAAAGCAAGTGGTATGGCTCCACGTGCTAGgtaagtttccatttcttcagcattttctaatttcaagatctcattgaacaactaagaataatgcacaaaaatcacctcaatgaatgtgagccttgtgcta
upper sequence: GLYMA09G06640.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G099452_T02 (Zea mays), 5'ss of exon 5
TCATACAGCCTCTATTGCAGCTGGAAGAAATGGAATTCCTGTGAGGATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgaggaatgacgccccccctaatt-----------gttcaacttctgatgaaaaccgggaagtacttgatgtttttttgtcttcag-----------------------------------------------------------------------------------
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CCACACAGCTGCAATTGCTGCTGGAAACAATGGGATTCCGGTGCGAATGCATGGTCACGAGTTTGGCAAAGCAAGTGGCATGGCCCCACGTGCTAGgtaatctatgatttcttcagcagtttctgaagggacatgcattttttggtgaatgttatagacacgcccatttacaattaacaccatgataatttgtgagttgagaaagccaatttgcttttgcttagttaccaatgtcttacttccttattttgtgtttgttagggtag
upper sequence: GLYMA09G06640.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G099452_T01 (Zea mays), 5'ss of exon 5
TCATACAGCCTCTATTGCAGCTGGAAGAAATGGAATTCCTGTGAGGATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgaggaatgacgccccccctaattgttcaa-----------cttctgatgaaaaccgggaagtacttgatgtttttttgtcttcag------------------------------------------------------------------------------
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CCACACAGCTGCAATTGCTGCTGGAAACAATGGGATTCCGGTGCGAATGCATGGTCACGAGTTTGGCAAAGCAAGTGGCATGGCCCCACGTGCTAGgtaatctatgatttcttcagcagtttctgaagggacatgcattttttggtgaatgttatagacacgcccatttacaattaacaccatgataatttgtgagttgagaaagccaatttgcttttgcttagttaccaatgtcttacttccttattttgtgtttgttag
upper sequence: GLYMA09G06640.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G19170.1 (Arabidopsis thaliana), 5'ss of exon 5
TCATACAGCCTCTATTGCAGCTGGAAGAAATGGAATTCCTGTGAGGATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgag----------gaatgacgccccccctaattgttcaacttctgatgaaaaccgggaagtacttga-tgtttttttgtcttcag
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TCATACAGCAGCTATAGCAGCTGGGAATAACGGTATTCCGTTGAGGATGCATGGTTATGAATTTGGAAAAGCGAGTGGGATGGCTCCTCGTGCAAGgtaggcagatgtgcaaaatggcagatttattgacagtttgtattct--tcacgttcagagactaaaaggctaaataatttctttcag
upper sequence: GLYMA09G06640.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G30020.1 (Arabidopsis thaliana), 5'ss of exon 5
TCATACAGCCTCTATTGCAGCTGGAAGAAATGGAATTCCTGTGAGGATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgt-gaggaatgacgccccccctaattg-----ttcaa-----cttctgatgaaaaccgggaagtacttgatgtttttttgtcttcag
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TCACACAGCAGCTATTGCAGCTGGGAACAATGGTATTCCAGTGAGGATGCACGGTTATGAGTTTGGAAAAGCAAGCGGGATGGCTCCTCGTGCAAGgtagatagataattgatccagaaattggtggctttaaagacatttctgttcctgtctttcaaa-actaaatgttgtcttgttttag-
upper sequence: GLYMA09G06640.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 5'ss of exon 5
TCATACAGCCTCTATTGCAGCTGGAAGAAATGGAATTCCTGTGAGGATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgaggaatgacgccccccctaa-ttgttcaactt-ctgatgaaaacc-------------gggaagta-cttgatgtttttttgtcttcag
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TCACACAGCAGCTATTGCAGCTGGAAATAATGGAATTCCAGTGAGAATGCATGGGTATGAATTTGGGAAAGCAAGTGGGATGGCTCCCCGTGCCAGgtgagggttaacaatctttgtatcttattcaaattactcagtatcatcctttcctctatttaaaaactatcttcctgtttggatgtattcagMapped 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|22523793|gb|BU082604.1|BU082604EST: ATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAG GAATGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGA
genomic: ATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgaggaatg ... ttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCATACAGCCTCTATTGCAGCTGGAAGAAATGGAATTCCTGTGAGGATGCATGGACATGAATTTGGGAAAGCAAGTGGAATGGCTCCCCGTGCCAGgtgaggaatgacgccccccctaattgttcaacttctgatgaaaaccgggaagtacttgatgtttttttgtcttcag
- - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA