Sequence
atgc intronic sequence ATGC exonic sequenceATACCTTGTTCTTGCCAACATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcctctgtattttgtttttaatatattttactcaattttcatttctctgattctgttctttatccactgaggtgaggatgatataccttcacttctttctgttctcaccttgcatatattctatactgcag
Basic information
species | Glycine max |
transcript | GLYMA19G17660.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G17660.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 5'ss of exon 8
ATACCTTGTTCTTGCCAACATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcctctgtattttgtttttaatatattttactcaattttcatttctctgattctgttctttatccactgaggtgaggatgatataccttcacttctttctgttctcaccttgcatatattctatactgcag
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ATATCTTGTTCTTGCAAATATGTTGATGGAATCTGAAGTGAATCCCTTTGATGGGCAAGAGGCTAAGCCgtaagacatttgatgattccctcataaatcttgtatcttaatttcatgccaccctgtaactccttgatgctttcag------------------------------------------------------------
upper sequence: GLYMA19G17660.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G132804_T01 (Zea mays), 5'ss of exon 8
ATACCTTGTTCTTGCCAACATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcctctgtattttgtttttaatatattttactcaattttcatttctctgattctgttctttatccactgaggtgaggatgatataccttcacttctttctgttctcaccttgcatatattctatactgcag
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ATATCTTGTCCTTGCCAATATGTTGATGGAGTCTGAAGTGAATCCTTTTGATGGACAAGAGGCCAAGCCgtaagacaactgatgatcccgcataaatcttgtagcttgatttacctcccacc--ctgaaaactcaaatgcttgcag-----------------------------------------------------------
upper sequence: GLYMA19G17660.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G079196_T01 (Zea mays), 5'ss of exon 8
ATACCTTGTTCTTGCCAACATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcc-tctgtattttgtttttaatatatttta-ctcaattttcatttctctgattctgttctt-tatccactgaggtgaggatgatataccttcacttctttctgttctcaccttgcatatattctatactgcag
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ATATCTTGTCCTTGCCAATATGTTGATGGAATCTGAAGTGAATCCTTTTGATGGACAAGAGGCCAAGCCgtaagacaatttatgatccccgcataa-atatggtagcttgatttccctcccaccctgaaaattctaatgtttgcag--------------------------------------------------------------
upper sequence: GLYMA19G17660.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 8
ATACCTTGTTCTTGCCAACATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcctctgtattttgtttttaatatattttactcaattttcatttctctgattctgttctttatccactgaggtgaggatgatataccttcacttctttctgttctcaccttgcatatattctatactgcag
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ATACTTGGTTCTGGCTAACATGCTCATGGAGTCAGAAGTTAATCCTTTTGATGGACAGGAGGCAAAGCCgtaagttgc-----tcttatgatttgtatatttg-----------atctgtgtgtttttgttattggtctgttg--gtggcaatgtt----ctttgttattccttgtggccac-ttacaattgctcttttccag--
upper sequence: GLYMA19G17660.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S90_192V6.1 (Physcomitrella patens), 5'ss of exon 8
ATACCTTGTTCTTGCCAACATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcctctgtattttgtttttaatatattttactcaattttcatttctctgattctgttctttatcca--ctgaggtgaggatgatataccttcacttctttctgttctcaccttgcatatattctatactgcag
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GTACTTGGTGCTTGCTAACATGCTAATGGAGTCTGAAGTGAACCCATTTGATGCTCAGGAGGCTAAACCgtaagtttctgaagcttactggttaatgtactgtaaacagcagac-------tgaatgttttatttgtacaagctgatgtgttcatatggtatggtaagcgtaattt-------------------------------
upper sequence: GLYMA19G17660.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S124_47V6.1 (Physcomitrella patens), 5'ss of exon 8
ATACCTTGTTCTTGCCAACATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcctctgtattttgtttttaatatattttactcaattttcatttctctgattctgttctttatccactgaggtgagga-tgatataccttcacttctttctgttctcaccttgcatatattctatactgcag
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GTACCTGGTACTTGCTAACATGTTGATGGAGTCTGAAGTGAACCCATTTGATGCTCAGGAGGCTAAACCgtaagac-tctgaagttaac---tgaaaaacgcacttgaattagcagat---tgatacactctaaaagtttgtgatatgataactgatttactcaaatgtaatgctt------------------------------Mapped 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|15285921|gb|BI469812.1|BI469812EST: ATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCC ATACAAGAATGACCCCGAAATTTTGGTAATGACAAACTTAATAGCAGCTTA
genomic: ATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcctc ... tatactgcagATACAAGAATGACCCCGAAATTTTGGTAATGACAAACTTAATAGCAGCTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATACCTTGTTCTTGCCAACATGTTGATGGAGTCTGAAGTAAATCCATTTGATGGACAGGAAGCTAAGCCgtaagtcctctgtattttgtttttaatatattttactcaattttcatttctctgattctgttctttatccactgaggtgaggatgatataccttcacttctttctgttctcaccttgcatatattctatactgcag
- - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - GATGGA