Sequence
atgc intronic sequence ATGC exonic sequencegtataaaaatatatattcttttgttgtgtggaatcacttggttcaacatatattatttaatattaaactgatcagcatttcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
Basic information
species | Glycine max |
transcript | GLYMA18G07280.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G163193_T02 (Zea mays), 3'ss of exon 5
gtataaaaatatatattcttttgttgtgtggaatcacttggttcaacatatattatttaatattaaactgatcagcatttcttttgg-tatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
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------------gtaacctacacatccatgatacgatttagcttcatgtattgaattgtatgcttaatccctttccgtctgtcttgtctttgtagATTGATGCTGTTGCAAAAAGCCGTGATGGTCGATATCGCATTGTCAGTAATGATGAACGTGAGCAGACACTAAACCAATTGCTCACG
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 5
gtataaaaatatatattcttttgttgtgtggaatcacttggttcaacatatattatttaatattaaactgatcagcatttcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
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gtgtgaatacaaaatcagtgttagattacctgctactttgtatcgatgtaaatc-ttta----caaatgtatttgtgtttctttcaattt-cagATAGATGCTGTCGCGAAAAGCCGTGATGGTAAATTCAGAATGGTCAGCAATGATGAAAGGGAGCAAACCTTGAATCAATTGCTCACT
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G47060.1 (Arabidopsis thaliana), 3'ss of exon 5
gtataaaaatatatattcttttgttgtgtggaatcacttggttcaacatatat-tatttaatattaaactgatcagcatttcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
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--gttagaataggtagtcgatgtcagattacctccggtatattaaacctctgggcatcttaaacaagattt-tctatttgcctctcatgctccagATAGATGCTGTGGCAAAAAGCCGTGATGGTAAATTCCGAATGGGGAGCAACGATGAAAGGGAGCAAACTTTAAATCAGTTGCTCACT
upper sequence: GLYMA18G07280.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 5
gtataaaaatatatattcttttgttgtgtggaatcacttggttcaacatatattatttaatattaaactgatcagcat-ttcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
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gt-tagaaccgtggaat-ttttgttgtgt--attcat---gttcagcattttgagcttcctggtgcgttgttagtcatgtttttcttcttcgcagATAGATGCTGTAGCAAAAAGCCGTGATGGTAGATTTCGCATTGTTAGCAATGATGAGCGAGAGCAAACCTTGAACCAGTTGCTTACTMapped 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|192305728|gb|FG995698.1|FG995698EST: TATTTGCAAGGGCTAAAAGGGAAGCTCCGTCCATAATCTTTATTGATGAG ATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAAT
genomic: TATTTGCAAGGGCTAAAAGGGAAGCTCCGTCCATAATCTTTATTGATGAGgtataaaaat ... tggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttcaacatatattatttaatattaaactgatcagcatttcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
aactgat putative branch site (score: 3)
catttctttt putative PPT
aacatatattatttaa TA-rich tract
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataaaaatatatattcttttgttgtgtggaatcacttggttcaacatatattatttaatattaaactgatcagcatttcttttggtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGCAAATTTCGCATTGTCAGCAATGATGAACGAGAGCAAACCTTGAATCAGTTGCTCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA