Sequence
atgc intronic sequence ATGC exonic sequenceTCAAAGGAGGCCAAAATTGGGTGCATGAGAAGGATCAGCTCTGGTGGTTTCCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAGgtagctgctaatgatttatttaagttctttattttctttgtctgaggaccatgctgattgtagaaatgttatttcgttgatttctttcaatactaatttt...
Basic information
species | Glycine max |
transcript | GLYMA0024S00260.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA0024S00260.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os05g31480.2 (Oryza sativa), 5'ss of exon 2
TCAAAGGAGGCCAAAATTGGGTGCATGAGAAGGATCAGCTCTGGTGGTTTCCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAGgtagctgctaat---gatttattta--agttctttattttctttgtctgaggacca-tgctgattgtagaaat-gttatttcgttgatttctttcaatactaatttt
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TAAAAGGAGGACAGAACTGGGTGCACGAGAAGGGTAAGCTTTGGTGGTTTCCTGGAGGTGGTACTCACTTCAAGCATGGTGCATCAGAGTATATAGAGAGgtaatcttgagtcctgacttgtttagaagtagaacgttttttctgtcccatgttcagtagtgagtgtagatttcaatgcaatcttgattgcttgtaagaa-------
upper sequence: GLYMA0024S00260.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G015126_T01 (Zea mays), 5'ss of exon 2
TCAAAGGAGGCCAAAATTGGGTGCATGAGAAGGATCAGCTCTGGTGGTTTCCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAGgtagctgctaatgatttatttaagtt-ctttattttctttgtctgaggaccatgctgattgtaga--aatgttatt-tcgttgatttctttcaatactaatttt
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TCAAAGGAGGACAGAACTGGGTGCATGAGAAGGGCAAACTTTGGTGGTTTCCTGGAGGTGGCACTCACTTCAAACATGGTGCATCAGAATACATAGAGAGgtaacta--aattttttgcctaactcacatcccacgttgtaacaaataagcttgatagttgtatactagtattattatctcctatggccattaatgcatata--
upper sequence: GLYMA0024S00260.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G04060.1 (Arabidopsis thaliana), 5'ss of exon 2
TCAAAGGAGGCCAAAATTGGGTGCATGAGAAGGATCAGCTCTGGTGGTTTCCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAGgtagctgcta--atgatttatttaagttctttattttctttg---tctgagga---------ccatgctgattgtagaaatgttatttcgttgatttctttcaatactaatttt---------
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TGAAAGGCGGCCAAAATTGGGTGCATGAACAAGGTCAGTTATGGTGGTTCCCTGGTGGTGGTACTCATTTCAAACATGGAGCTCCGGAATACATCCAGAGgtatttgaaattatcatgtgtttcgatttctatattgctttggaattcgagggagaagaaggttagaccgggttttatacttttgcctaatgcattcccctgaatttctgtattgtaatacag
upper sequence: GLYMA0024S00260.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G10200.1 (Arabidopsis thaliana), 5'ss of exon 2
TCAAAGGAGGCCAAAATTGGGTGCATGAGAAGGATCAGCTCTGGTGGTTTCCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAGgtagct-gctaatgatttatttaagttctttattttctttgtctgaggaccatgctgattgtagaaatgttatttcgttgatttctttcaatactaatttt
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TTAAAGGTGGCCAAAATTGGGTCCATGAGCAAGGTCAGTTTTGGTGGTTCCCTGGTGGTGGTACTCATTTTAAGCATGGAGCTGCAGAATACATCCAGAGgtaatttatttataatgt-ctgaagatgtttgtctaatgcattg------cattaaaattttgtatatgttatctcag-----------------------
upper sequence: GLYMA0024S00260.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv08s0007g05750.t01 (Vitis vinifera), 5'ss of exon 2
TCAAAGGAGGCCAAAATTGGGTGCATGAGAAGGATCAGCTCTGGTGGTTTCCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAGgtagctgctaatgatttattt----aagttctttattttctttgtctgaggaccatgctgattgtagaaatgttatttcgttgatttctttcaatactaatttt
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TTAAAGGAGGGCAGAATTGGGTTCATGAGATGAATCAGCTCTGGTGGTTCCCTGGTGGCGGTACTCATTTCAAGCATGGAGCTCCTGAGTATATTCAGAGgtacatgtgctgggtttgttttctcgaatagcctctatttttttttttttttttgcttttttttcatcaatgtc----catgaatatccacaaatgcatgcatcMapped 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|19935654|gb|BQ080531.1|BQ080531EST: CCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAG GTTAGGACATATGATTACCAATGAGGCTGGTGATCTGCGTTCTGCTGGGGT
genomic: CCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAGgtagctgcta ... atgaatgcagGTTAGGACATATGATTACCAATGAGGCTGGTGATCTGCGTTCTGCTGGGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAAAGGAGGCCAAAATTGGGTGCATGAGAAGGATCAGCTCTGGTGGTTTCCTGGTGGTGGTACCCATTTCAAGCATGGGGCTTCTGATTACATAGAGAGgtagctgctaatgatttatttaagttctttattttctttgtctgaggaccatgctgattgtagaaatgttatttcgttgatttctttcaatactaatttt
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG