Sequence
atgc intronic sequence ATGC exonic sequence...aacctggaatgcatgaaagtaggggcgggatcttgtatgatttctctgttgtaataatctgctttaaaagcggacatgaacaagaggtcttttgctgcagGCAATGGCACAAGTTGGTGGTTTGGTCATGTTGCAACCTGAAGTGGGAGGCTCTCGTGAAAACTTCTTCTTTGCTGGAATAGACAAAGTGCGGTTTCGTA
Basic information
species | Glycine max |
transcript | GLYMA08G19200.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G19200.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g36000.1 (Oryza sativa), 3'ss of exon 3
aacctggaatgcatgaaagtaggggcgggatcttgtatgatttctctgttgtaataatctgctttaaaa----gcggacatgaacaagaggtcttttgc-------tgcagGCAATGGCACAAGTTGGTGGTTTGGTCATGTTGCAACCTGAAGTGGGAGGCTCTCGTGAAAACTTCTTCTTTGCTGGAATAGACAAAGTGCGGTTTCGTA
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----------atgagaacatgcgtgctcgatcttaggtatttcctctggtctagca-tcagcaagacaactccctgcctagtgacaaaatagtttttaccttgatgtgcagGCAATGGCCCAGGTTGGAGGTCTGGTTATGTTGCAACCTGAAGTTGGTGGATCTCGAGAGAACTTCTTTTTTGCAGGGATTGATAAAGTGAGATTTCGTA
upper sequence: GLYMA08G19200.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g12840.1 (Oryza sativa), 3'ss of exon 3
aacctggaatgcatgaaagtaggggcgggatcttgtatgatttctctgttgtaataatctgctttaaaagcggacatgaac------------aagaggtcttttgctgcagGCAATGGCACAAGTTGGTGGTTTGGTCATGTTGCAACCTGAAGTGGGAGGCTCTCGTGAAAACTTCTTCTTTGCTGGAATAGACAAAGTGCGGTTTCGTA
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----------agatgaggacatgg-ctggatgttttttaattgct-tattgttctatcatcaagtagacaaacatctgaacttccctcatgtgaggctacctttatgcacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGTTGCAGCCTGAAATTGGCGGATCTCGGGACAATTTCTTCTTTGCAGGAATTGATAAAGTGAGGTTCCGTA
upper sequence: GLYMA08G19200.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0357g00020.t01 (Vitis vinifera), 3'ss of exon 3
aacctggaatgcatgaaagtaggggcgggatcttgtatgattt---ctctgttgtaata-atctgctttaaaagcggacatgaacaagaggtcttttgctgcagGCAATGGCACAAGTTGGTGGTTTGGTCATGTTGCAACCTGAAGTGGGAGGCTCTCGTGAAAACTTCTTCTTTGCTGGAATAGACAAAGTGCGGTTTCGTA
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-ttgttaaattcttt---ttacaaccctgtttctatcaagttcgcatttggatacattacatgtgcctctagtaattgctgatgaaagtggttggtgggtccagGCAATGGCTCAGGTTGGGGGCTTGGTTATGCTTCAACCTGAAGTTGGAGGCTCTCGTGAGAATTTCTTCTTTGCAGGAATCGACAAAGTGAGGTTCCGGAMapped 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|207706186|gb|GD688480.1|GD688480EST: GGTGTTCTAATGGTTTGAG GCAATGGCACAAGTTGGTGGTTTGGTCATGTTGCAACCTGAAGTGGGAGG
genomic: GGTGTTCTAATGG-TTGAGgtactaaaat ... tttgctgcagGCAATGGCACAAGTTGGTGGTTTGGTCATGTTGCAACCTGAAGTGGGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgttgtaataatctgctttaaaagcggacatgaacaagaggtcttttgctgcagGCAATGGCACAAGTTGGTGGTTTGGTCATGTTGCAACCTGAAGTGGGAGGCTCTCGTGAAAACTTCTTCTTTGCTGGAATAGACAAAGTGCGGTTTCGTA
tcttttgct CT-rich tract
taataatct 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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacctggaatgcatgaaagtaggggcgggatcttgtatgatttctctgttgtaataatctgctttaaaagcggacatgaacaagaggtcttttgctgcagGCAATGGCACAAGTTGGTGGTTTGGTCATGTTGCAACCTGAAGTGGGAGGCTCTCGTGAAAACTTCTTCTTTGCTGGAATAGACAAAGTGCGGTTTCGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - gcatgaa
- - - - - - - - - - - gggcggg
- - - - - - - - - - - - - - - - -tgtatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaac