Difference between revisions of "Lnc-TNKS-1:1"
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==Annotated Information==
===Transcriptomic Nomeclature===
Please input transcriptomic nomeclature information here.
===Functio...") |
Chunlei Yu (talk | contribs) |
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==Annotated Information== | ==Annotated Information== | ||
| − | === | + | ===Name=== |
| − | + | RNCR3: Retinal noncoding RNA 3 | |
| + | |||
| + | ===Characteristics=== | ||
| + | Intergenic, four exon transcript in mouse. | ||
| + | |||
| + | Gene contains a highly expressed, brain specific microRNA (mir124a-1) in an exon ([http://www.ncbi.nlm.nih.gov/pubmed/12007417 Lagos-Quintana (2002)]). | ||
===Function=== | ===Function=== | ||
Please input function information here. | Please input function information here. | ||
| + | |||
| + | ===Expression=== | ||
| + | Dynamic expression in mouse retinal development [http://www.ncbi.nlm.nih.gov/pubmed/15226823 (Blackshaw (2004))]. | ||
| + | |||
| + | Expressed throughout adult mouse brain with enriched expression in hippocampus subfields, Purkinje neurons of the cerebellum and the mitral layer of the olfactory bulb [http://www.ncbi.nlm.nih.gov/pubmed/20137068 (Mercer (2010))]. | ||
| + | |||
| + | Up-regulated during differentiation of GABAergic neurons in culture but downregulated during oligodendrocyte differentiation [http://www.ncbi.nlm.nih.gov/pubmed/20137068 (Mercer (2010))]. | ||
| + | |||
| + | ===Conservation=== | ||
| + | LncRNA is conserved in mammals and overlaps the LOC157627 noncoding Refseq gene in humans [http://www.ncbi.nlm.nih.gov/pubmed/20137068 (Mercer (2010))]. | ||
| + | |||
| + | ===Misc=== | ||
| + | Oct4, Nanog transcription factors are reported to bind to locus [http://www.ncbi.nlm.nih.gov/pubmed/19182780 (Guttman (2009))]. | ||
| + | |||
| + | ===Transcriptomic Nomeclature=== | ||
| + | Please input transcriptomic nomeclature information here. | ||
===Regulation=== | ===Regulation=== | ||
Please input regulation information here. | Please input regulation information here. | ||
| − | |||
| − | |||
| − | |||
===Allelic Information and Variation=== | ===Allelic Information and Variation=== | ||
| Line 26: | Line 44: | ||
==References== | ==References== | ||
| − | + | [http://www.lncrnadb.org/rncr3/ Annotation originally sourced from lncRNAdb.] | |
{{basic| | {{basic| | ||
| Line 42: | Line 60: | ||
sequence = <dnaseq>CGCCCTCCGCAGACCTCCGCGCAGCGGCCGCGGGCGCGAGGGGAGGGGTCTGGAGCTCCCTCCGGCTGCCTGTCCCGCACCGGAGCCCGTGGGGTGGGGAGGTGTGCAGCCTGTGACAGACAGGGGCTTAGAGATGCAAACAGACTCAGGGAGAGAAACAGAAGCTGATTCTGTGACAGAAGCAGATCTGTGCAGCACAGATGCGGTGTGCGTGGGGAGGGGGTCGCCTGGGAGCGCATTGCGGAGTGCTTGTGTGTGCAGATTTTTCTCTGGGCTCAGGACTCATTGTATGTGGGTCAACACCTTCCTCCGTGACTGTGTTTTTGTTCTGAGCTGAGTTTTTTGGTTTGCCCTTAAAAAAATAATAATTTGGCATCCAGAGACTGGCAGACTGCCTCAGGGCCTGGACTGCGGATATATTGTGTTCTGCTTGAGGTTTGGGGAGGAGGGCAGGCGGTAGGAAGGGAGAGGGGGAGCTGTTTGTCACACTTTGCTGTAGAGCTGAGAGCACCTGACAAGCTTAAGGAAGTCGTTGGGCTATGTGGACAAGAAGGAGCCAGCTCCCAGCGGGTTCACAAGCTCTATCGGAGTTGAAAGCGTGGTCATGGCTCTAAGGAGCACCTCACGCCCTCCCTGTAGCTGTTATTGCAGTTTCAGGCAGAGATCCAGGAGCTGCAGAGGAAGGGAGAGGCACAATAACCTACATGGACCCAAGGGAGACATGTGTTCCTTTAAAAATGTGAACAGAAGGAAAAACAGAATGTGTGCAACTGGGGGTCTGAGGAAAGACTGTTTTGAAAGAGGCTGTCAGGGAATGGAAAGGGTTAAGCTTTTCATCCTGAAGAACCTGCTTCCCAAATCAGGCCTTCCTCCCATCACTAGACCCTGAGCAGCAGCTGGTCCTAGAGACCCCCCTCGTACTGCGCTGCCACAGTCTCATCCCATTTCCAGCTCTGTATTAACCACCAAGCTGCAGCGGATGGGGCAAGACCTAAGCTCATTAATTTCCAGGTGGAGGAAATGGAGGAGGGGCAGGTCCCTGCAGTAGAGGGAGGAGCAGAGAAAGGAGGCCAAGAGCTGGATCCTTCTGCCCAGGAAGCCTGCTGCATCCCTTCCCCCGAGCATGGCAGAGGCCTGGCTTTGCAAGGCCAAGGCCATAAGGGATGCTTAGGAGATTAATTTGATTCCTGACACAATAATCAAGCCCTAAGAGTCTCCACTGAAGCTTACTGAGGACTTCTTTCCTCTCCAAAGCCTCAGTCTAGCCTGCTAAATAAATTAGTATTCAGTGATGCCTTGGATCAGGGCCCCTCCCCGGCCTCAGTTTCCCCAAATATTTATTAAGTACCTACTGTGTGCAATCCTTGTGTAATTATTACCTCTTAGGCTCTTCATTTGCCCTCCTAAAGCAGTGTTTAGAGTCAGGCAGAGGTTAAGTGTGTTGCACCTCACCTAGATACTTCCAGAACCTTCTCTGGGTCTGCAGAATGTGGCACAACCTGCTTGCCCCCGCAGAGAGAAAGCTGCAGTGCACATCCTGCAGACTGCAGGTGCTGGGCTGCCTCTGGAGTCCCAGAAGGCAAGCTTGGCTGCAGGACAGAAAGGGAGAACAGCTTCTCTCACCCCTGAGCCTTCACAAGCCCTTGTCTATTTGCCGTTGCCTTCAAAATATACCTCCCCCGAAACCAGTAGCTTTCTGAGTCCTGGTGTCCCCTCCGCCCTTTCTGGACAGGTTTGGGAAGAAGAAAGCAGTCAGTGCTGGGCCTTATTGGGGTGTGAAGCGCCTTGCTCTGCCCCTTCTGCTCACTGTGAAGGCCGCTGGATGCTTCTCTTAGGCATGGTTTAAGCCTCCGATTACTAAACCCCTTGCCCCACAAACGTCCACATTGACGAGCCTCTTTTTAGTAACTGCTTCCCCGTAATTCCTTCAGAGGTTGCTGTACCCTTCGCTGATGTGCTGCCCTCCTGTAAAACCTCCAGATGCCTTCCCACGTAATGCCCCTTTCAGATGCTTTAAGCTGAGAGCTTAAACCACAGGTACCATGGCTGACGCCTGCCAGGTTTCTGCTGCAGATAATCTATGATGGGAGGGGCATATTTTTTACTTCATTACTTATGTAAACTCTTGTTCCAGAAAGCTTTAATGTGTGTGGGAGTGTTCTGGGTCTATTAGGTCTGTGCGCATGGGTGTGGGCATTTGCCTGTGTCCACCGGGTGGGTCTCATTATGAAATGTATGTTTATGTAGGGCTTTAATGGCTGAAAATGGCAAAGAGATGAATAGACCACTTGGCCCCATGTGTAATTGCCAGGCCCCTTCTGTGCTCAAATGAGGTGTCCGAGTGAAGGTCAGCCCTTCCCTTCTGTATTTGGGGCCTATTTATGCCACCAGTAATTTTATAAGAAATCTGAATAGTTCTCCCCTTTGAGTGCATTTAACTCTTTAGTATCTTCTCTCTTACCTATTTGAGCCCCTCTAGCTACAGTCTGGCTTAAATGAAAGGGGAATTATATGCTTAAGAAAAAGTAGGACACGGTTGAGGCAGTTTGCTGACTGAATACGCGAAGAAGGACCTGATGGGCTCATATGCACCACTGCCATCACAGTCCCCATCGTGATGCAAGCTTATATGATTCTTGAGAAACAGCCCAGATCTCCTCTTAAGCGGAAAAGAGATTGACCTTCTAGCAGAGGCAAAGAATGGAGTCTTCTGGGGGCAGCTGCAAAGCGTTCTCCCTAGGACAGATGGAGCCTCCCTTTCCTCATCTACTCTGTGGGTGGTTTCAGGGCCCACGAGTCAACATGAGGAGTTGTGCTGGTGGTATGTGTGTTGGAGGCTGGGCTGGCTGATTCACAGTGACGAGGATGTCAATAATAACAAGAATGAGAATGATGGTACCTAATAAAGACTTTTTTTCCCAA</dnaseq>| | sequence = <dnaseq>CGCCCTCCGCAGACCTCCGCGCAGCGGCCGCGGGCGCGAGGGGAGGGGTCTGGAGCTCCCTCCGGCTGCCTGTCCCGCACCGGAGCCCGTGGGGTGGGGAGGTGTGCAGCCTGTGACAGACAGGGGCTTAGAGATGCAAACAGACTCAGGGAGAGAAACAGAAGCTGATTCTGTGACAGAAGCAGATCTGTGCAGCACAGATGCGGTGTGCGTGGGGAGGGGGTCGCCTGGGAGCGCATTGCGGAGTGCTTGTGTGTGCAGATTTTTCTCTGGGCTCAGGACTCATTGTATGTGGGTCAACACCTTCCTCCGTGACTGTGTTTTTGTTCTGAGCTGAGTTTTTTGGTTTGCCCTTAAAAAAATAATAATTTGGCATCCAGAGACTGGCAGACTGCCTCAGGGCCTGGACTGCGGATATATTGTGTTCTGCTTGAGGTTTGGGGAGGAGGGCAGGCGGTAGGAAGGGAGAGGGGGAGCTGTTTGTCACACTTTGCTGTAGAGCTGAGAGCACCTGACAAGCTTAAGGAAGTCGTTGGGCTATGTGGACAAGAAGGAGCCAGCTCCCAGCGGGTTCACAAGCTCTATCGGAGTTGAAAGCGTGGTCATGGCTCTAAGGAGCACCTCACGCCCTCCCTGTAGCTGTTATTGCAGTTTCAGGCAGAGATCCAGGAGCTGCAGAGGAAGGGAGAGGCACAATAACCTACATGGACCCAAGGGAGACATGTGTTCCTTTAAAAATGTGAACAGAAGGAAAAACAGAATGTGTGCAACTGGGGGTCTGAGGAAAGACTGTTTTGAAAGAGGCTGTCAGGGAATGGAAAGGGTTAAGCTTTTCATCCTGAAGAACCTGCTTCCCAAATCAGGCCTTCCTCCCATCACTAGACCCTGAGCAGCAGCTGGTCCTAGAGACCCCCCTCGTACTGCGCTGCCACAGTCTCATCCCATTTCCAGCTCTGTATTAACCACCAAGCTGCAGCGGATGGGGCAAGACCTAAGCTCATTAATTTCCAGGTGGAGGAAATGGAGGAGGGGCAGGTCCCTGCAGTAGAGGGAGGAGCAGAGAAAGGAGGCCAAGAGCTGGATCCTTCTGCCCAGGAAGCCTGCTGCATCCCTTCCCCCGAGCATGGCAGAGGCCTGGCTTTGCAAGGCCAAGGCCATAAGGGATGCTTAGGAGATTAATTTGATTCCTGACACAATAATCAAGCCCTAAGAGTCTCCACTGAAGCTTACTGAGGACTTCTTTCCTCTCCAAAGCCTCAGTCTAGCCTGCTAAATAAATTAGTATTCAGTGATGCCTTGGATCAGGGCCCCTCCCCGGCCTCAGTTTCCCCAAATATTTATTAAGTACCTACTGTGTGCAATCCTTGTGTAATTATTACCTCTTAGGCTCTTCATTTGCCCTCCTAAAGCAGTGTTTAGAGTCAGGCAGAGGTTAAGTGTGTTGCACCTCACCTAGATACTTCCAGAACCTTCTCTGGGTCTGCAGAATGTGGCACAACCTGCTTGCCCCCGCAGAGAGAAAGCTGCAGTGCACATCCTGCAGACTGCAGGTGCTGGGCTGCCTCTGGAGTCCCAGAAGGCAAGCTTGGCTGCAGGACAGAAAGGGAGAACAGCTTCTCTCACCCCTGAGCCTTCACAAGCCCTTGTCTATTTGCCGTTGCCTTCAAAATATACCTCCCCCGAAACCAGTAGCTTTCTGAGTCCTGGTGTCCCCTCCGCCCTTTCTGGACAGGTTTGGGAAGAAGAAAGCAGTCAGTGCTGGGCCTTATTGGGGTGTGAAGCGCCTTGCTCTGCCCCTTCTGCTCACTGTGAAGGCCGCTGGATGCTTCTCTTAGGCATGGTTTAAGCCTCCGATTACTAAACCCCTTGCCCCACAAACGTCCACATTGACGAGCCTCTTTTTAGTAACTGCTTCCCCGTAATTCCTTCAGAGGTTGCTGTACCCTTCGCTGATGTGCTGCCCTCCTGTAAAACCTCCAGATGCCTTCCCACGTAATGCCCCTTTCAGATGCTTTAAGCTGAGAGCTTAAACCACAGGTACCATGGCTGACGCCTGCCAGGTTTCTGCTGCAGATAATCTATGATGGGAGGGGCATATTTTTTACTTCATTACTTATGTAAACTCTTGTTCCAGAAAGCTTTAATGTGTGTGGGAGTGTTCTGGGTCTATTAGGTCTGTGCGCATGGGTGTGGGCATTTGCCTGTGTCCACCGGGTGGGTCTCATTATGAAATGTATGTTTATGTAGGGCTTTAATGGCTGAAAATGGCAAAGAGATGAATAGACCACTTGGCCCCATGTGTAATTGCCAGGCCCCTTCTGTGCTCAAATGAGGTGTCCGAGTGAAGGTCAGCCCTTCCCTTCTGTATTTGGGGCCTATTTATGCCACCAGTAATTTTATAAGAAATCTGAATAGTTCTCCCCTTTGAGTGCATTTAACTCTTTAGTATCTTCTCTCTTACCTATTTGAGCCCCTCTAGCTACAGTCTGGCTTAAATGAAAGGGGAATTATATGCTTAAGAAAAAGTAGGACACGGTTGAGGCAGTTTGCTGACTGAATACGCGAAGAAGGACCTGATGGGCTCATATGCACCACTGCCATCACAGTCCCCATCGTGATGCAAGCTTATATGATTCTTGAGAAACAGCCCAGATCTCCTCTTAAGCGGAAAAGAGATTGACCTTCTAGCAGAGGCAAAGAATGGAGTCTTCTGGGGGCAGCTGCAAAGCGTTCTCCCTAGGACAGATGGAGCCTCCCTTTCCTCATCTACTCTGTGGGTGGTTTCAGGGCCCACGAGTCAACATGAGGAGTTGTGCTGGTGGTATGTGTGTTGGAGGCTGGGCTGGCTGATTCACAGTGACGAGGATGTCAATAATAACAAGAATGAGAATGATGGTACCTAATAAAGACTTTTTTTCCCAA</dnaseq>| | ||
}} | }} | ||
| − | [[Category:Intergenic]] | + | [[Category:Intergenic]][[Category:Transcripts]] |
Latest revision as of 03:46, 26 August 2015
Please input one-sentence summary here.
Contents
Annotated Information
Name
RNCR3: Retinal noncoding RNA 3
Characteristics
Intergenic, four exon transcript in mouse.
Gene contains a highly expressed, brain specific microRNA (mir124a-1) in an exon (Lagos-Quintana (2002)).
Function
Please input function information here.
Expression
Dynamic expression in mouse retinal development (Blackshaw (2004)).
Expressed throughout adult mouse brain with enriched expression in hippocampus subfields, Purkinje neurons of the cerebellum and the mitral layer of the olfactory bulb (Mercer (2010)).
Up-regulated during differentiation of GABAergic neurons in culture but downregulated during oligodendrocyte differentiation (Mercer (2010)).
Conservation
LncRNA is conserved in mammals and overlaps the LOC157627 noncoding Refseq gene in humans (Mercer (2010)).
Misc
Oct4, Nanog transcription factors are reported to bind to locus (Guttman (2009)).
Transcriptomic Nomeclature
Please input transcriptomic nomeclature information here.
Regulation
Please input regulation information here.
Allelic Information and Variation
Please input allelic information and variation information here.
Evolution
Please input evolution information here.
You can also add sub-section(s) at will.
Labs working on this lncRNA
Please input related labs here.
References
Annotation originally sourced from lncRNAdb.
Basic Information
| Transcript ID |
lnc-TNKS-1:1 |
| Source |
LNCipedia2.1 |
| Same with |
, |
| Classification |
intergenic |
| Length |
2922 nt |
| Genomic location |
chr8+:9757573..9760839 |
| Exon number |
, |
| Exons |
, |
| Genome context |
|
| Sequence |
000001 CGCCCTCCGC AGACCTCCGC GCAGCGGCCG CGGGCGCGAG GGGAGGGGTC TGGAGCTCCC TCCGGCTGCC TGTCCCGCAC 000080
000081 CGGAGCCCGT GGGGTGGGGA GGTGTGCAGC CTGTGACAGA CAGGGGCTTA GAGATGCAAA CAGACTCAGG GAGAGAAACA 000160 000161 GAAGCTGATT CTGTGACAGA AGCAGATCTG TGCAGCACAG ATGCGGTGTG CGTGGGGAGG GGGTCGCCTG GGAGCGCATT 000240 000241 GCGGAGTGCT TGTGTGTGCA GATTTTTCTC TGGGCTCAGG ACTCATTGTA TGTGGGTCAA CACCTTCCTC CGTGACTGTG 000320 000321 TTTTTGTTCT GAGCTGAGTT TTTTGGTTTG CCCTTAAAAA AATAATAATT TGGCATCCAG AGACTGGCAG ACTGCCTCAG 000400 000401 GGCCTGGACT GCGGATATAT TGTGTTCTGC TTGAGGTTTG GGGAGGAGGG CAGGCGGTAG GAAGGGAGAG GGGGAGCTGT 000480 000481 TTGTCACACT TTGCTGTAGA GCTGAGAGCA CCTGACAAGC TTAAGGAAGT CGTTGGGCTA TGTGGACAAG AAGGAGCCAG 000560 000561 CTCCCAGCGG GTTCACAAGC TCTATCGGAG TTGAAAGCGT GGTCATGGCT CTAAGGAGCA CCTCACGCCC TCCCTGTAGC 000640 000641 TGTTATTGCA GTTTCAGGCA GAGATCCAGG AGCTGCAGAG GAAGGGAGAG GCACAATAAC CTACATGGAC CCAAGGGAGA 000720 000721 CATGTGTTCC TTTAAAAATG TGAACAGAAG GAAAAACAGA ATGTGTGCAA CTGGGGGTCT GAGGAAAGAC TGTTTTGAAA 000800 000801 GAGGCTGTCA GGGAATGGAA AGGGTTAAGC TTTTCATCCT GAAGAACCTG CTTCCCAAAT CAGGCCTTCC TCCCATCACT 000880 000881 AGACCCTGAG CAGCAGCTGG TCCTAGAGAC CCCCCTCGTA CTGCGCTGCC ACAGTCTCAT CCCATTTCCA GCTCTGTATT 000960 000961 AACCACCAAG CTGCAGCGGA TGGGGCAAGA CCTAAGCTCA TTAATTTCCA GGTGGAGGAA ATGGAGGAGG GGCAGGTCCC 001040 001041 TGCAGTAGAG GGAGGAGCAG AGAAAGGAGG CCAAGAGCTG GATCCTTCTG CCCAGGAAGC CTGCTGCATC CCTTCCCCCG 001120 001121 AGCATGGCAG AGGCCTGGCT TTGCAAGGCC AAGGCCATAA GGGATGCTTA GGAGATTAAT TTGATTCCTG ACACAATAAT 001200 001201 CAAGCCCTAA GAGTCTCCAC TGAAGCTTAC TGAGGACTTC TTTCCTCTCC AAAGCCTCAG TCTAGCCTGC TAAATAAATT 001280 001281 AGTATTCAGT GATGCCTTGG ATCAGGGCCC CTCCCCGGCC TCAGTTTCCC CAAATATTTA TTAAGTACCT ACTGTGTGCA 001360 001361 ATCCTTGTGT AATTATTACC TCTTAGGCTC TTCATTTGCC CTCCTAAAGC AGTGTTTAGA GTCAGGCAGA GGTTAAGTGT 001440 001441 GTTGCACCTC ACCTAGATAC TTCCAGAACC TTCTCTGGGT CTGCAGAATG TGGCACAACC TGCTTGCCCC CGCAGAGAGA 001520 001521 AAGCTGCAGT GCACATCCTG CAGACTGCAG GTGCTGGGCT GCCTCTGGAG TCCCAGAAGG CAAGCTTGGC TGCAGGACAG 001600 001601 AAAGGGAGAA CAGCTTCTCT CACCCCTGAG CCTTCACAAG CCCTTGTCTA TTTGCCGTTG CCTTCAAAAT ATACCTCCCC 001680 001681 CGAAACCAGT AGCTTTCTGA GTCCTGGTGT CCCCTCCGCC CTTTCTGGAC AGGTTTGGGA AGAAGAAAGC AGTCAGTGCT 001760 001761 GGGCCTTATT GGGGTGTGAA GCGCCTTGCT CTGCCCCTTC TGCTCACTGT GAAGGCCGCT GGATGCTTCT CTTAGGCATG 001840 001841 GTTTAAGCCT CCGATTACTA AACCCCTTGC CCCACAAACG TCCACATTGA CGAGCCTCTT TTTAGTAACT GCTTCCCCGT 001920 001921 AATTCCTTCA GAGGTTGCTG TACCCTTCGC TGATGTGCTG CCCTCCTGTA AAACCTCCAG ATGCCTTCCC ACGTAATGCC 002000 002001 CCTTTCAGAT GCTTTAAGCT GAGAGCTTAA ACCACAGGTA CCATGGCTGA CGCCTGCCAG GTTTCTGCTG CAGATAATCT 002080 002081 ATGATGGGAG GGGCATATTT TTTACTTCAT TACTTATGTA AACTCTTGTT CCAGAAAGCT TTAATGTGTG TGGGAGTGTT 002160 002161 CTGGGTCTAT TAGGTCTGTG CGCATGGGTG TGGGCATTTG CCTGTGTCCA CCGGGTGGGT CTCATTATGA AATGTATGTT 002240 002241 TATGTAGGGC TTTAATGGCT GAAAATGGCA AAGAGATGAA TAGACCACTT GGCCCCATGT GTAATTGCCA GGCCCCTTCT 002320 002321 GTGCTCAAAT GAGGTGTCCG AGTGAAGGTC AGCCCTTCCC TTCTGTATTT GGGGCCTATT TATGCCACCA GTAATTTTAT 002400 002401 AAGAAATCTG AATAGTTCTC CCCTTTGAGT GCATTTAACT CTTTAGTATC TTCTCTCTTA CCTATTTGAG CCCCTCTAGC 002480 002481 TACAGTCTGG CTTAAATGAA AGGGGAATTA TATGCTTAAG AAAAAGTAGG ACACGGTTGA GGCAGTTTGC TGACTGAATA 002560 002561 CGCGAAGAAG GACCTGATGG GCTCATATGC ACCACTGCCA TCACAGTCCC CATCGTGATG CAAGCTTATA TGATTCTTGA 002640 002641 GAAACAGCCC AGATCTCCTC TTAAGCGGAA AAGAGATTGA CCTTCTAGCA GAGGCAAAGA ATGGAGTCTT CTGGGGGCAG 002720 002721 CTGCAAAGCG TTCTCCCTAG GACAGATGGA GCCTCCCTTT CCTCATCTAC TCTGTGGGTG GTTTCAGGGC CCACGAGTCA 002800 002801 ACATGAGGAG TTGTGCTGGT GGTATGTGTG TTGGAGGCTG GGCTGGCTGA TTCACAGTGA CGAGGATGTC AATAATAACA 002880 002881 AGAATGAGAA TGATGGTACC TAATAAAGAC TTTTTTTCCC AA |
