Sequence
atgc intronic sequence ATGC exonic sequenceCCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgttagttatattgactcccaaatcttttcatcctattattatcaattagaagctaactgttggatccttcctctcctccccccattccctgtcccgttttcttgccttttcaatcaatgcag
Basic information
species | Glycine max |
transcript | GLYMA11G06650.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 5'ss of exon 7
CCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgttagttatattg--actcccaaatcttttcatcctatt----attatcaattaga-agctaactgttggatccttcctctcctccccccattccctgtcccgttttcttgccttttcaatcaatgcag
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CCTGATTGAATATAGAGCACATCCTTTCTGGTTACAAAAATACTGTCCATCACATGAGGTGGACGGTACTCCAAGATGCTGTAGTTGTGAAAGAATGGAGgtacgttcaattaccatgtttgaatttataaatctgattcagcatacttggtcagatatgttgctgttgcaaaattttgatcagttcatcaaaaaatggcttgtgctcttatcag--------------
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G017845_T02 (Zea mays), 5'ss of exon 6
CCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgt----tagtta-tattgactcccaaatcttttcatcc---tattattatcaattagaagctaactgttggatccttcctctcc-tccccccattccctgtcccgttttcttgccttttcaatcaatgcag
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CCTTATTGAATATAGGGCACATCCTTTCTGGGTACAAAAATACTGTCCTTCACATGAAATGGATGGTACTCCGAGGTGCTGTAGTTGTGAAAGAATGGAGgtaggccagttagcatgtttttcttaatttggtcttgtgggcatatttcatggttagaagagagcctctgtgtgtgaaatttggatcatttcattcc--aacatggtttgttcacttaccag---------
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 3
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 7
CCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgttagttatattgactcccaaatcttttcatcctattattatcaattagaagctaactgttggatccttcctctcctccccccattccctgtcccgttttcttgccttttcaatcaatgcag
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TCTTATTGAGTATAGGGCACATCCCTTTTGGATGCAAAAGTATTGTCCTTCACATGAGCGTGATGGAACTCCTCGGTGTTGCAGTTGTGAGCGAATGGAGgtcagttgt-tcgat--------------atagcatttctgttaataggaaaataaatttaagaatctgattcgaaaaccagatgttgttctgtttttggctcatggtttcag---------
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
CCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgttagtt--------atattgactcccaaatcttttcatc-ctattattatcaattagaagct-aactgttggatccttcc---tctcctccccccattccctgtcccgttttcttgccttt-tcaatcaatgcag
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AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 8
CCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgttagttatat-------tgactcccaaatcttttcatcctattattatcaattagaagctaactgttggatccttcctctcctccccccattccctgtcccgttttcttgc----cttttcaatcaatgcag
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ACTTATTGAGTATAGAGCACATCCGTTCTGGATGCAAAAGTACTGTCCCTCACACGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAAAGAATGGAGgttagttggaagaagatacaaccccccatcccacacacactgaagaaatcttcttgtagcttgatgataaacaacagatctctaatttttcttttttggtatttctttatggaaaatctgccaacccatgcagMapped 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|193464302|gb|FK434078.1|FK434078EST: CGCATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAG CCAAGGGATACAAAATATCTTTTGCTTGATGATGGTCGAAAGCTATGTTTA
genomic: CACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgttagttata ... atcaatgcagCCAAGGGATACAAAATATCTTTTGCTTGATGATGGTCGAAAGCTATGTTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgttagttatattgactcccaaatcttttcatcctattattatcaattagaagctaactgttggatccttcctctcctccccccattccctgtcccgttttcttgccttttcaatcaatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA