Sequence
atgc intronic sequence ATGC exonic sequenceAAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaattcggactgaagacctaacttttatacagtgtttttatgttctcttatagtagacgccctttataaacatcattatcaaacag
Basic information
species | Glycine max |
transcript | GLYMA08G16780.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g15870.4 (Oryza sativa), 5'ss of exon 4
AAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaattc-ggactgaagacctaacttttatacagtgtttttatgttctcttatagtagac-gccctttataaacatcattatcaaacag--------------------------------------------------------------
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-----CTGTCAATGTCAGATTTATAGAGTTTATGCCGTTTGATGGTAATGTTTGGAATGTCAAGAAGTTGGTTCCTTATGCAGAGATGATGGATAAAGTGGTAAGgtacacctctgaaaagttcacttcccttatacattttacctttctttcttccgcctgcatctagcatcctagccattttatgtacatgtggttttattattattattatggaagctacaagtaatttttcttacttgcaaccttggggatcag
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g15870.1 (Oryza sativa), 5'ss of exon 4
AAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaattc-ggactgaagacctaacttttatacagtgtttttatgttctcttatagtagac-gccctttataaacatcattatcaaacag--------------------------------------------------------------
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CAAGCCTGTCAATGTCAGATTTATAGAGTTTATGCCGTTTGATGGTAATGTTTGGAATGTCAAGAAGTTGGTTCCTTATGCAGAGATGATGGATAAAGTGgtaaggtacacctctgaaaagttcacttcccttatacattttacctttctttcttccgcctgcatctagcatcctagccattttatgtacatgtggttttattattattattatggaagctacaagtaatttttcttacttgcaaccttggggatcag
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os12g32230.2 (Oryza sativa), 5'ss of exon 4
AAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaattcggactgaag-acctaacttttatacagtgtttttatgttctcttatagtagacgccctttataaacat--cattatcaaacag------------------------------------------------------------
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-----CTGTCAATGTCAGATTTATTGAGTTTATGCCGTTTGATGGTAATGTTTGGAATGTCAAGAAGTTGGTTCCTTATGCAGAGATAATGGATAAAGTGGTAAGgtacacctcggaaaagttcactttccttgtacattatacctttattttcttctgccagcatctagcatcctagccatggtatgtgcatgtggtatttatttttattatgcaagctacaaataatttatttaatttgcacccttgtggatcag
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os12g32230.1 (Oryza sativa), 5'ss of exon 4
AAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaattcggact-gaagacctaacttttatacagtgtttttatgttctcttatagtagacgccctttataaacat--cattatcaaacag------------------------------------------------------------
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CAAGCCTGTCAATGTCAGATTTATTGAGTTTATGCCGTTTGATGGTAATGTTTGGAATGTCAAGAAGTTGGTTCCTTATGCAGAGATAATGGATAAAGTGgtaaggtacacctcggaaaagttcactttccttgtacattatacctttattttcttctgccagcatctagcatcctagccatggtatgtgcatgtggtatttatttttattatgcaagctacaaataatttatttaatttgcacccttgtggatcag
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G135816_T01 (Zea mays), 5'ss of exon 3
AAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaatt-cggactgaagac--cta-acttttatac-agtgtttttatgttctcttatagtagacgccctttataaacatcattatcaaacag--------------------------------
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CAAGCCCATCAACGTTAGATTTATTGAGTTTATGCCATTTGATGGTAATGTTTGGAATGTGAAGAAGCTAGTTCCTTATGCAGAGATGTTGGACAAAGTGgtaaggtacacctgtggaaagtgcactactatattcttctgctagtgtctatccatggcattatgtactgaatcctttcttaatat-attttggaataataacttatttcattggcattcatgttgatcag
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G31955.1 (Arabidopsis thaliana), 5'ss of exon 3
AAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaattcggactgaagacctaacttttatacagtgtttttatgttctcttatagtagacgccc--tttataaacatcattatca-aacag
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CAAGCCAATCAATGTCCGGTTCATCGAGTTTATGCCATTTGATGGAAATGTTTGGAATGTGAAGAAACTTGTACCTTATGCAGAAGTGATGGATAAAGTGgtaaggtagaattct--ctcaatgtttagccttttttgagattactcaacttttccttgagcattttcatgattggtttcagttgttatggtaacag
upper sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0156g00170.t01 (Vitis vinifera), 5'ss of exon 5
AAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaattcggactgaagacctaacttttatacagtgtttttatgttctcttatagtagacgccctttataaa-catcattatcaaacag
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TAAACCAATTAATATTCGGTTTATTGAGTTCATGCCTTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCTTATGCAGAAATGTTGGATAGAGTGgtaaggtagaactctgacaggtgatccca----tgtatagattttgaataacccttt---gtacattttcataatcagtcattattactggacagMapped 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|21595390|gb|BQ610465.1|BQ610465EST: TTTGGAATGTCAAGAAATTTGTACCCTACTCAGAAATGTTGGATACAGTG ATGAAACAGTTTACAAGCTTAAAAAGAGTTCAGGATCACCCTACAGATACA
genomic: TTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtaga ... tatcaaacagATGAAACAGTTTACAAGCTTAAAAAGAGTTCAGGATCACCCTACAGATACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAGCCAATTGATATTCGGTTTATAGAGTTCATGCCCTTTGATGGAAATGTTTGGAATGTCAAGAAACTTGTACCCTACTCAGAAATGTTGGATACAGTGgtaaggtagaattcggactgaagacctaacttttatacagtgtttttatgttctcttatagtagacgccctttataaacatcattatcaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA