Sequence
atgc intronic sequence ATGC exonic sequenceCCGTGCCTCTGATTTTGGTCTAATGAAGATAGACAATAAAGGAAGGGTCCTTTCGTTTAGTGAAAAACCCAAAGGAGAAGAGCTGAAAGCAATGgtaagcatcatgtttattatactgctaaaaaagtttccagaattatattcactgctaatactgctttatatttag
Basic information
species | Glycine max |
transcript | GLYMA07G38820.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38820.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os03g52460.1 (Oryza sativa), 5'ss of exon 7
CCGTGCCTCTGATTTTGGTCTAATGAAGATAGACAATAAAGGAAGGGTCCTTTCGTTTAGTGAAAAACCCAAAGGAGAAGAGCTGAAAGCAATGgtaag-cat-catgtttatt-atactgctaaaaa-----agtttccagaattatattcactgctaatactgctttatatttag------------------
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CCGGGCATCTGATTTTGGTCTAATGAAGATAGACGACACAGGAAGAGTTATCGCATTTAGTGAAAAACCAAAAGGAGATGATTTAAAGGCAATGgtaggtcatatatgtttattcatacgggaatggattctaaaccctcgaggggatatcccctcgta-tatctttttctttcaaattcgatacaaatagttat
upper sequence: GLYMA07G38820.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G391936_T01 (Zea mays), 5'ss of exon 3
CCGTGCCTCTGATTTTGGTCTAATGAAGATAGACAATAAAGGAAGGGTCCTTTCGTTTAGTGAAAAACCCAAAGGAGAAGAGCTGAAAGCAATGgtaagcatcatgtttattatactgctaaaaaagtttccagaattatattcactgctaatactgctttatatttag-----------------------------------------
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CCGGGCATCTGATTTTGGCCTAATGAAGATAGACGACACTGGAAGGGTAATTTCATTCAGTGAGAAACCAAAAGGAGACGAATTAAAGGCAATGgtaagcttgacttttttcttctttcctgtcaactgccctgtagttatttaggtgcacaaatt---ttataactgaagtaaacagaagttcatgagctattattttattgtttgcag
upper sequence: GLYMA07G38820.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G19220.1 (Arabidopsis thaliana), 5'ss of exon 7
CCGTGCCTCTGATTTTGGTCTAATGAAGATAGACAATAAAGGAAGGGTCCTTTCGTTTAGTGAAAAACCCAAAGGAGAAGAGCTGAAAGCAATGgtaagcatcatgttt---attatactgctaaaaaagtttccagaattatattcactgct--aatactgctttatatttag-----------
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ACGTGCCTCAGATTTTGGGCTTATGAAGATAGATGACAAAGGAAGAGTTATCTCATTCAGTGAAAAACCTAAAGGAGACGACCTGAAAGCAATGgtatgtttaaaacttcggaaaatcatttttgaacaataatagcatctcggaacaaaacctgaagattgttttaacctcggggcatccttag
upper sequence: GLYMA07G38820.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv05s0020g02880.t01 (Vitis vinifera), 5'ss of exon 7
CCGTGCCTCTGATTTTGGTCTAATGAAGATAGACAATAAAGGAAGGGTCCTTTCGTTTAGTGAAAAACCCAAAGGAGAAGAGCTGAAAGCAATGgtaagcatcatgtttattat-actgctaaaaaagtttccagaattatattcactgctaatactgctttatatttag---------------------
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CCGTGCTTCAGATTTCGGTTTAATGAAGATAGACAACAAAGGAAGGGTTCTCTTCTTCAGTGAAAAGCCTAAAGGAGAAGATTTGAAGGCAATGgtaatgatttttttttttttcattactacag--ttttagagagatgggttctgatctgaaggctctgagtggctactgactgtgccaatgtcattagMapped 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|11413026|gb|BF425046.1|BF425046EST: GGGTCCTTTCGTTTAGTGAAAAACCCAAAGGAGAAGAGCTGAAAGCAATG CAAGTAGATACAACCGTTTTGGGCCTTTCAAAGGACGAGGCTCAAAAGAAA
genomic: GGGTCCTTTCGTTTAGTGAAAAACCCAAAGGAGAAGAGCTGAAAGCAATGgtaagcatca ... ttatatttagCAAGTAGATACAACCGTTTTGGGCCTTTCAAAGGACGAGGCTCAAAAGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCGTGCCTCTGATTTTGGTCTAATGAAGATAGACAATAAAGGAAGGGTCCTTTCGTTTAGTGAAAAACCCAAAGGAGAAGAGCTGAAAGCAATGgtaagcatcatgtttattatactgctaaaaaagtttccagaattatattcactgctaatactgctttatatttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA