Sequence
atgc intronic sequence ATGC exonic sequenceTGAGGGAGGGGCTACATGGGCATATGAGGTTGGCTCGCAATCAATGGTTTGTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaatgagtgatgcttcataattatttttaaatacacttatcccttgaatgtatttgtattggctctaatccattgtgtttacttggttattcttgcag
Basic information
species | Glycine max |
transcript | GLYMA11G18290.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G18290.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 8
TGAGGGAGGGGCTACATGGGCATATGAGGTTGGCTCGCAATCAATGGTTTGTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaatgagtgatgcttcataattattttta-aatacacttatcccttgaatgtatttgtattggctctaatc-cattgtgtttacttggttattcttgcag
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TGAAGGTGGTGCTACTTGGGCTTTTGATGTTGGCAGTCAATCTATGACATGCCCAATCATTGTTGAAGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatcattctgtt--attgctgtctttgtagaactagtattttgtgattcttgatgcacaaacactactttccgtttgttgacggtggtgcctattcag
upper sequence: GLYMA11G18290.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G031656_T02 (Zea mays), 5'ss of exon 9
TGAGGGAGGGGCTACATGGGCATATGAGGTTGGCTCGCAATCAATGGTTTGTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaatgagtgatgcttcataattatttttaaatacacttatccct-tgaatgtatttgtattggctctaatccattgtgtttacttggttattcttgcag
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CGAAGGTGGTGCGACTTGGGCCTTTGATGTTGGTAGTCAATCTATGACGTGTCCAATCATTGTTGAGGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatgattctgttat-tgcttgtcctttca---actcattattgtcaatgtatgcatattgctaatggtgttgcctgtatag----------------
upper sequence: GLYMA11G18290.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G158281_T02 (Zea mays), 5'ss of exon 8
TGAGGGAGGGGCTACATGGGCATATGAGGTTGGCTCGCAATCAATGGTTTGTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaatgagtgatgcttcataattatttttaaatacacttatcccttgaatgtatttgtattggctctaatccattgtgtttacttggttattcttgcag
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CGAAGGTGGGGCTACCTGGGCTTTTGATGTCGGCTCTCAGTCTATGACATGTCCAATCATTGTTGAGGATCTTGACCGACCTCGTCAGATGCTTGTGGAGgtaatgactatcgtactac--ttattgtttatggcact----------atgt-ttcacctagaacgcatgtgattgtgatgacttggttgcctctacag
upper sequence: GLYMA11G18290.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv06s0009g00440.t01 (Vitis vinifera), 5'ss of exon 8
TGAGGGAGGGGCTACATGGGCATATGAGGTTGGCTCGCAATCAATGGTTTGTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaatgagtgatgcttcataattatttttaaatacacttatcccttgaat--gtatttgtattggc-tctaatccattgtgtttacttggttattcttgcag---------------------
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TGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAATAGTTGAAGATCTGAATCCACCTCGTCAAATGCTTGTGGAGgtagtgacatattgattttaacctcagaaagttgggtttcagtttctaattagcatttgcatctctattttgttctttctttttatattttcaacttttaatgctttatttcgtgggtgacagMapped 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|193446790|gb|FK411753.1|FK411753EST: GTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAG ATGCTTTGTGAGGAACGGGGTTTCTTTCTGGAAATAGCCGACTTAATCAGA
genomic: GTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaatgagtg ... attcttgcagATGCTTTGTGAGGAACGGGGTTTCTTTCTGGAAATAGCCGACTTAATCAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGGGAGGGGCTACATGGGCATATGAGGTTGGCTCGCAATCAATGGTTTGTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaatgagtgatgcttcataattatttttaaatacacttatcccttgaatgtatttgtattggctctaatccattgtgtttacttggttattcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG