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2024-11-21 22:32:39, GGRNA : RefSeq release 226 (Sep, 2024)

Summary:

Results:

Matches are highlighted with green background. Overlapping matches are dark colored.

Danio rerio zgc:161973 (zgc:161973), mRNA. (1822 bp)
actgtacaccagcagagtggggttgcaaggagagtatgtgcagctaaacgctgttgatttctctgattcttccgaacacatgcctgtggtgaggatctgtctaccatggcaagcagagggactgaagggaaatgttgagcgttgctgtatgatgactctgacagtcctggatgaggctcagcgccccttctggtgtgtgagttcacctgtgaggatgtccagtaatccgagagtggtggacgtggagtacgaaggtgagcagttcatcatcctttatgaggacgcggaggggaaggtcaaaatgacctttgtgtggatggaggagttccagcacttcttcttggtgcagttgtttactgtgttctcagtagccaaagtgaaaaagcacttttgggggtgaatgactttgattgtgctttgagctcgaagatcatttagaatatttttattttcctattttatttattttttgctctttgttgatggagatatctgaaatgttttgttgtggagtttcaagggcattaacgtttccaaatgaagaaaaaaaaacagcaaatctcaaagcacttaatttttcatcaatttaaaattggtaaa...
position 1384
NM_001082806.1 - Danio rerio (zebrafish) - NCBI - UCSC
PREDICTED: Danio rerio E3 ubiquitin-protein ligase TRIM39 (LOC100149991), mRNA. (2093 bp)
gagcggatgtcagcgctggagcaggagatctctgagctggagagcagaaacactgagctggagcagctctcacacactgaagatcatctacacctcatacagattcactcttcactcagcagcttcagaaacaccaggagcaggtctgagatcagctggaagactcacgagactctaaagagagctctgattaaactgaaggagtccatagatgagaaactcgagcaaactgcctctgaagagctgaagtggatgcagcagtatgcagtggatgtgactctggatcctgataaaggtcatagtgacctcaaactttctgatgatggaaaacaagtacgatttagagacattttgccgaattattcatccaaaccacagagatttgacagaaatttatttgttttgggaagggagggattctcctcggggagattttattttgaggtgctggtgaaggaaaagacggactggactttaggagtggccagagaatccactgacaggaataaagagattacagtgagtccccgaactggatgctggactgtggctctgattaatggaaatgattatcgtgcctgcaatgatcctccagtctct...
position 1275
XM_003200506.6 - Danio rerio (zebrafish) - NCBI - UCSC
PREDICTED: Danio rerio iroquois homeobox 6a (irx6a), transcript variant X3, mRNA. (2096 bp)
ccttatcctacaaagggtgaaaagatcatgctggccattatcaccaaaatgaccctcacgcaagtgtctacctggtttgccaatgctagaagacgactaaaaaaagaaaacaagatgacttggtcccccaaaaacaaagcaggcgatgacaggaaggaagacctcggtaagagtgacccagacattaccaaagactccaaagacagtaaggatgagcaggacctgcagttcagtgacctggatgatatggaggatgaggactgtgacaagctggacagtgactgtgaaaaatcaggtcaggatgacctcccgacctcctcccctccaaagagagactgtaaccctgacatccctctccactccaacttcccatcttttccctgtggtctgaagagtttggggcctctgaacccagactacctagatcatctgggctccaaaccacagcagcaacagccctcacctcagtccacctccataaacactgtggcactctctcactttgagtcatcggagaagccccggatctggtcgttggcacgtacggccgcagcaggggttgtactaggcacacagcatgttggggatgtacggactggg...
position 874
Synonym: zgc:109993; ziro6a
XM_068222282.1 - Danio rerio (zebrafish) - NCBI - UCSC
PREDICTED: Danio rerio iroquois homeobox 6a (irx6a), transcript variant X2, mRNA. (2507 bp)
acatggctttatgagcaccgcaaaaacccttatcctacaaagggtgaaaagatcatgctggccattatcaccaaaatgaccctcacgcaagtgtctacctggtttgccaatgctagaagacgactaaaaaaagaaaacaagatgacttggtcccccaaaaacaaagcaggcgatgacaggaaggaagacctcgactccaaagacagtaaggatgagcaggacctgcagttcagtgacctggatgatatggaggatgaggactgtgacaagctggacagtgactgtgaaaaatcaggtcaggatgacctcccgacctcctcccctccaaagagagactgtaaccctgacatccctctccactccaacttcccatcttttccctgtggtctgaagagtttggggcctctgaacccagactacctagatcatctgggctccaaaccacagcagcaacagccctcacctcagtccacctccataaacactgtggcactctctcactttgagtcatcggagaagccccggatctggtcgttggcacgtacggccgcagcaggggttgtactaggcacacagcatgttggggatgtacggactggg...
position 1336
Synonym: zgc:109993; ziro6a
XM_021477513.1 - Danio rerio (zebrafish) - NCBI - UCSC
Danio rerio iroquois homeobox 6a (irx6a), mRNA. (2296 bp)
acatggctttatgagcaccgcaaaaacccttatcctacaaagggtgaaaagatcatgctggccattatcaccaaaatgaccctcacgcaagtgtctacctggtttgccaatgctagaagacgactaaaaaaagaaaacaagatgacttggtcccccaaaaacaaagcaggcgatgacaggaaggaagacctcgactccaaagacagtaaggatgagcaggacctgcagttcagtgacctggatgatatggaggatgaggactgtgacaagctggacagtgactgtgaaaaatcaggtcaggatgacctcccgacctcctcccctccaaagagagactgtaaccctgacatccctctccactccaacttcccatcttttccctgtggtctgaagagtttggggcctctgaacccagactacctagatcatctgggctccaaaccacagcagcaacagccctcacctcagtccacctccataaacactgtggcactctctcactttgagtcatcggagaagccccggatctggtcgttggcacgtacggccgcagcaggggttgtactaggcacacagcatgttggggatgtacggactggg...
position 1069
Synonym: zgc:109993; ziro6a
NM_001023575.2 - Danio rerio (zebrafish) - NCBI - UCSC
PREDICTED: Danio rerio iroquois homeobox 6a (irx6a), transcript variant X1, mRNA. (2360 bp)
ccttatcctacaaagggtgaaaagatcatgctggccattatcaccaaaatgaccctcacgcaagtgtctacctggtttgccaatgctagaagacgactaaaaaaagaaaacaagatgacttggtcccccaaaaacaaagcaggcgatgacaggaaggaagacctcggtaagagtgacccagacattaccaaagactccaaagacagtaaggatgagcaggacctgcagttcagtgacctggatgatatggaggatgaggactgtgacaagctggacagtgactgtgaaaaatcaggtcaggatgacctcccgacctcctcccctccaaagagagactgtaaccctgacatccctctccactccaacttcccatcttttccctgtggtctgaagagtttggggcctctgaacccagactacctagatcatctgggctccaaaccacagcagcaacagccctcacctcagtccacctccataaacactgtggcactctctcactttgagtcatcggagaagccccggatctggtcgttggcacgtacggccgcagcaggggttgtactaggcacacagcatgttggggatgtacggactggg...
position 1138
Synonym: zgc:109993; ziro6a
XM_005168976.5 - Danio rerio (zebrafish) - NCBI - UCSC
PREDICTED: Danio rerio iroquois homeobox 6a (irx6a), transcript variant X2, mRNA. (2369 bp)
ccttatcctacaaagggtgaaaagatcatgctggccattatcaccaaaatgaccctcacgcaagtgtctacctggtttgccaatgctagaagacgactaaaaaaagaaaacaagatgacttggtcccccaaaaacaaagcaggcgatgacaggaaggaagacctcggtaagagtgacccagacattaccaaagactccaaagacagtaaggatgagcaggacctgcagttcagtgacctggatgatatggaggatgaggactgtgacaagctggacagtgactgtgaaaaatcaggtcaggatgacctcccgacctcctcccctccaaagagagactgtaaccctgacatccctctccactccaacttcccatcttttccctgtggtctgaagagtttggggcctctgaacccagactacctagatcatctgggctccaaaccacagcagcaacagccctcacctcagtccacctccataaacactgtggcactctctcactttgagtcatcggagaagccccggatctggtcgttggcacgtacggccgcagcaggggttgtactaggcacacagcatgttggggatgtacggactggg...
position 1138
Synonym: zgc:109993; ziro6a
XM_009303318.4 - Danio rerio (zebrafish) - NCBI - UCSC
PREDICTED: Danio rerio shisa family member 8b (shisa8b), mRNA. (4154 bp)
caatgggaccccccttttaattgtaacgctggtatcttcttgtactgttgcggcacctgtttctaccggttctgctgccagttccgtcaacagcgactggatcagacctcctgctccaactatgatactccaatttgggcaaatactggaaaacctgtggccaccaacactgaggtgcagccagaccacgagcgggatcgaactcatatgattgtatacattatctgtggtgtggtggccatcatggtcctggtgggcatcttcaccaaactgggtctggagaagagccgtggaggtcagaatgacctaagtaactccaggactctccaggagttaatgaagcagccaggtggagaggcgaatgctgtggatggacctctgagcaacagctcctctattggagcaaatggcatctctgccaggatgcttcgcagccgcagtgagcagtaccatctaaacaacgctggcttttcttttggtgcaccggctggactctctcatcctcaaagcaacctcagcataccaggccttgcactcaacaaatacaactctctgaaagcagttgctgacactgcaaaccggagctactacaagagttat...
position 793
XM_005156170.5 - Danio rerio (zebrafish) - NCBI - UCSC
PREDICTED: Danio rerio shisa family member 8b (shisa8b), mRNA. (4155 bp)
caatgggaccccccttttaactgtaatgctggtatcttcttgtactgttgcggcacctgtttctaccggttctgctgccagttccgtcaacagcgactggatcagacctcctgctccaactatgatactccaatttgggcaaatactggaaaacctgtggccaccaacactgaggtgcagccagaccacgagcgggatcgaactcatatgattgtatacattatctgtggtgtggtggccatcatggtcctggtgggcatcttcaccaaactgggtctggagaagagccgtggaggtcagaatgacctaagtaactccaggactctccaggagttaatgaagcagccaggtggagaggcgaatgctgtggatggacctctgagcaacagctcctctattggagcaaatggcatctctgccaggatgcttcgcagccgcagtgagcagtaccatctaaacaacgctggcttttcttttggtgcaccggctggactctctcatcctcaaagcaacctcagcataccaggccttgcactcaacaaatacaactctctgaaagcagttgctgacactgcaaaccggagctactacaagagttat...
position 794
XM_021480293.2 - Danio rerio (zebrafish) - NCBI - UCSC
PREDICTED: Danio rerio shisa family member 8b (shisa8b), mRNA. (4158 bp)
caatgggaccccccttttaactgtaatgctggtatcttcttgtactgttgcggcacctgtttctaccggttctgctgccagttccgtcaacagcgactggatcagacctcctgctccaactatgatactccaatttgggcaaatactggaaaacctgtggccaccaacactgaggtgcagccagaccacgagcgggatcgaactcatatgattgtatacattatctgtggtgtggtggccatcatggtcctggtgggcatcttcaccaaactgggtctggagaagagccgtggaggtcagaatgacctaagtaactccaggactctccaggagttaatgaagcagccaggtggagaggcgaatgctgtggatggacctctgagcaacagctcctctattggagcaaatggcatctctgccaggatgcttcgcagccgcagtgagcagtaccatctaaacaacgctggcttttcttttggtgcactggctggactctctcatcctcaaagcaacctcagcataccaggccttgcactcaacaaatacaactctctgaaagcagttgctgacactgcaaaccggagctactacaagagttat...
position 794
XM_021472515.2 - Danio rerio (zebrafish) - NCBI - UCSC

Data Export:

Maximum 10000 results can be retrieved as Tab-delimited text or JSON format.

Debug Info:

Redirect URI : http://ggrna.dbcls.jp/dr/iub%3aaggtcannrtgacct
lang : en | div : | spe : dr | query_string : iub:aggtcannrtgacct | format : html | download : 

0.000 | 0.000 | search_start;
0.125 | 0.125 | count_done; http://172.18.8.71:7700/v1/refsub/query?q=((nt:aggtcaaaatgacct)%7C(nt:aggtcaatatgacct)%7C(nt:aggtcaagatgacct)%7C(nt:aggtcaacatgacct)%7C(nt:aggtcataatgacct)%7C(nt:aggtcattatgacct)%7C(nt:aggtcatgatgacct)%7C(nt:aggtcatcatgacct)%7C(nt:aggtcagaatgacct)%7C(nt:aggtcagtatgacct)%7C(nt:aggtcaggatgacct)%7C(nt:aggtcagcatgacct)%7C(nt:aggtcacaatgacct)%7C(nt:aggtcactatgacct)%7C(nt:aggtcacgatgacct)%7C(nt:aggtcaccatgacct)%7C(nt:aggtcaaagtgacct)%7C(nt:aggtcaatgtgacct)%7C(nt:aggtcaaggtgacct)%7C(nt:aggtcaacgtgacct)%7C(nt:aggtcatagtgacct)%7C(nt:aggtcattgtgacct)%7C(nt:aggtcatggtgacct)%7C(nt:aggtcatcgtgacct)%7C(nt:aggtcagagtgacct)%7C(nt:aggtcagtgtgacct)%7C(nt:aggtcagggtgacct)%7C(nt:aggtcagcgtgacct)%7C(nt:aggtcacagtgacct)%7C(nt:aggtcactgtgacct)%7C(nt:aggtcacggtgacct)%7C(nt:aggtcaccgtgacct))?source=Danio rerio (zebrafish)?to=0&format=json
0.256 | 0.131 | search_done; http://172.18.8.71:7700/v1/refsub/query?q=((nt:aggtcaaaatgacct)%7C(nt:aggtcaatatgacct)%7C(nt:aggtcaagatgacct)%7C(nt:aggtcaacatgacct)%7C(nt:aggtcataatgacct)%7C(nt:aggtcattatgacct)%7C(nt:aggtcatgatgacct)%7C(nt:aggtcatcatgacct)%7C(nt:aggtcagaatgacct)%7C(nt:aggtcagtatgacct)%7C(nt:aggtcaggatgacct)%7C(nt:aggtcagcatgacct)%7C(nt:aggtcacaatgacct)%7C(nt:aggtcactatgacct)%7C(nt:aggtcacgatgacct)%7C(nt:aggtcaccatgacct)%7C(nt:aggtcaaagtgacct)%7C(nt:aggtcaatgtgacct)%7C(nt:aggtcaaggtgacct)%7C(nt:aggtcaacgtgacct)%7C(nt:aggtcatagtgacct)%7C(nt:aggtcattgtgacct)%7C(nt:aggtcatggtgacct)%7C(nt:aggtcatcgtgacct)%7C(nt:aggtcagagtgacct)%7C(nt:aggtcagtgtgacct)%7C(nt:aggtcagggtgacct)%7C(nt:aggtcagcgtgacct)%7C(nt:aggtcacagtgacct)%7C(nt:aggtcactgtgacct)%7C(nt:aggtcacggtgacct)%7C(nt:aggtcaccgtgacct))?source=Danio rerio (zebrafish)?to=49?from=0?snippet=full_search?drilldown=source?get=accession,version,gi,length,symbol,synonym,geneid,division,source,definition&format=json
0.265 | 0.009 | cgi_end;

GGRNA ver.2 by @meso_cacase at DBCLS
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If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596. [Full Text]