NONHSAT095745

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Annotated Information

Name

KCNIP4-IT1: KCNIP4 intronic transcript 1

UM9-5, NCRNA00099

Characteristics

Found in an intron of KCNIP4 in the sense direction. ~2.3kb clones were identified in pig and human. NCRNA00099 which contains UM9-5 is ~10kb. Given it's position in an intron the full length of the transcript is somewhat unclear, cloning gave shorter transcripts, while transcription could be detected over whole NCRNA00099 site (but not outside it) in human. Transcript contains a number of repeats.

Function

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Expression

Identified as a RNA that is more highly expressed in adult brain than fetal brain. Expression in human and pig was similar. Mostly restricted to adult brain, highest expression in cerebellum. Low expression was also detected in porcine embryonic tissues.

Conservation

Transcripts identified in pig and human. Southern blotting also could identify a homologous sequence in cow but not in rodents.

Misc

KCNIP4 is a voltage-gated potassium (Kv) channel-interacting protein which is expressed in brain. UM9-5 accessions: AY072607, AY072608, AY072609, AY072610 and AY072611.

Transcriptomic Nomeclature

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Regulation

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Allelic Information and Variation

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Evolution

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Labs working on this lncRNA

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References

Annotation originally sourced from lncRNAdb.

Basic Information

Transcript ID	NONHSAT095745
Source	NONCODE4.0
Same with	,
Classification	intergenic
Length	9848 nt
Genomic location	chr4-:21844964..21854811
Exon number	1
Exons	21844964..21854811
Genome context
Sequence	000001 CTATGAGTCT GGCAGGAAGC TGAACAGTTT TACAAATTAG GCAATCAAGA CTCAGGATTT AAGTGACTTG GACTGAACTG 000080 000081 GCTCAATTTC TTCAAATATA GAGAGTACAA AGAAACCTGG TCAATCTTAC TACTGTCCTT GAAAGAATGT TTTTTCCTAA 000160 000161 TTCAGCAAGG CAAAACTGTT AGCAAAAGTG TTCTTCAACA AGGGATCTGT GATTGTATGT TAAAAAGCTT TCTCTAAGGT 000240 000241 ACTTATCACT TAAGTAACAA TGACCTGATT CATTTTTGTT TTTTGTGGGG AATTGTAACA GTAAGGAAAT CATGGTTCTT 000320 000321 CACTGTTTTA GTGAGATAGG TGAATTTTGG AATTGTGTAC CAACTGAGGT AAGGCAAAAG TCTACAGTAA AACTGTTAGA 000400 000401 ATTCTACTTA AAAATATGAA TAGAAAATGC AGAAAATCAG TAAATAAAAA TAAATCTACA GACCAGTTGC ATGCAGAGTG 000480 000481 AGTTTGAATG TGTCATGTAT GATGCTGAGT TACTGATGTG ACTCTGAGCA CATGTGACTC TGTGGGCTCA CCCCATAGGA 000560 000561 CTTGGTATTC TCTGCTGGGT TCACACTATC TCTAATTAGG GAACATTTAA GCTTATGTTT ACTGTGTTAG AGAACATCGA 000640 000641 CTTAAATCTA CCCTATTAAC AAATAGAGTT TCTCAGGTTG TTTTGTTGCT TTGCTCTGCC GAAGTTCAAT TTAGACCATT 000720 000721 TCTAATTAAA TTAAACGTGA ATGAGAGAAG ACTGTTAGAA GAGGTAAACA TTCTCAGTTC TTCCAGAATT CTTCCTAAAA 000800 000801 AGTAGCTGAA CCACCCTTTC CCTGGGGTTT AGCAGAGATT GTGAGTTGCC TCATGGAAGG CAGGGGCCAT GCTTTATTGA 000880 000881 CAATATTTAT TTCCAGAACC TCAATGAGGA CAAAGCTTAT AAAAAGCATT CAGTACACAC TGGCTGAATA AACCAATGAG 000960 000961 CTGCAGTCTG GAAGCCTTCC CGGGACAGAC TCTCTGGACT TTAGTAAAAT AGAGAGCTTC CTTGGAGGTC CCCACACACT 001040 001041 TATCTTGACA GTGACCTTAT TGGTTTGTAA TGAATTGTTG ATGTTTCTTT CCCACTAGAA AATTATCTCC CAGAAGTTAT 001120 001121 TTTTTGTCAG CTGTGAATCT CTATAATCTG TGAACACACA CACACACACA CACACACACA CACACACACA CATATTAATT 001200 001201 GAATTGTAGA GGTTTTTTAT GTCTAGACTT CTTATACTAA GAGGGTACCA TAGACAGCAT ATAGGCATGA AACAATTAAC 001280 001281 TCAAAAGCAA AAATTTTATT AAGACAGAAC TGAGACGAGG GTTCCAGTAT CTTGAGAGTC TCCCCTGGCC AGTGTTTCTT 001360 001361 GTCTCCTTCA CCTATGCACC CATCTGACAA TTTAAAAAAC TAAAGCTTGG AGATTCATGT TGGCAATTTT TTATTATTAG 001440 001441 TGTACGTGGT ATATATAGCT TTTCCGCAAT TTGGTTGGAG AAATGTTTTG CTAGCTTCCC AGAAACTAGC AGCCTTCACC 001520 001521 AAAGTGGGGG CTGTCTTAAG GTGTGCCCCC TTACCTTGGG ATAAAGCTAT GTGCTATGGA ATCACACAAG CCCGTGTTTG 001600 001601 TATTTTTTTC ATTTTAATTT TTAAACACTT GCATAAAATT AAGGGGTAAA GTGCAGTTTG GCTTCATGGA TCTATTGCTT 001680 001681 TAGGGGAAGT CTGGGCTTTT AGAGTGACCA TCACTTGCAT AATGTACATT GTACCCATTA AGTAATTTCT CATCCCTCAA 001760 001761 CCCCTTCCAA CCTCCAACCC TTCTTAGTCT CTAGTGTGAT TGTTCCACAC TCTACATCCA CATTATTTAG CTCTCCCTTA 001840 001841 TTTAGCTCCC CTGTATACAT TATTTAGCTC CCCCTTATGA ATGAGAACAT GCAGTGTTGG ATTTTCAGAA AGCCTTTCTG 001920 001921 AGCCTTGGTT TTCTCATCTG TGTAAGTGGG ATTTGAATGC CTTCCTGAGG GACTCTCAAC CCTAGCTTAA CCCCTCTCCT 002000 002001 CTCCTCCCTC CCTGCACTAA TGCCTGTGGC TCTCTTCTGT CTGCTAGGGT GGGATCGAAA GTTAAAAATA TCAGCATATT 002080 002081 TCAACCTTAT TTCAGTTTTC TTGACATTGT TTTAGAAACT TGAGTGTTAC TCCTCCCTTT ACCACAGCTA GGTTATCGTG 002160 002161 TTCTTTCACA GTGCTTTTAG TGTTTTTTTT CCTATGTCAT TATGTTCTGT GTTAGTCTGC CCCGCAAGAC TCTAAGCTTT 002240 002241 ATGATGATTA GAGACTTTGT CTGCTTTATT TATGCATGCC TAACAATCAG TTTTGAATCT TGCACAAATG TTGAGTGCAC 002320 002321 GGTTAATGAG GGAATATGTA GTGTTTGGGT TAAAAGGCAT GAGCTCCACA GCAAGCCTGA GCGTGGAGTC AGTGAGCTGA 002400 002401 GGTGAATGGG ACCATCTCCA GTTTCAAGAT GATCTTATCG GGATCAAACT GATGTAAAAA ATCTTATTTT GTACTACAAT 002480 002481 AAAAGTTTAA AACTGAAAAA AAATCATGTA ATTGAAATTA AATGAGCTTT TTTTGTTTTC TGTGGTTCAT AACAAAATAC 002560 002561 TTGAAACTGG GCAGTTTATA AAGAAAAGGA ATTTATTTCT TACAGTTATG GAGGTTGAAA AGTCCAAGGT TGAAGGGACT 002640 002641 TCTTGCTGGT AGGGACTCTC TGTAGAGTCC CGAGGTGACA CAGGGCATCA CACGGTGAGG GGCTGAGCAT GTTAGCTTAG 002720 002721 TTCTCTCTTC CTCTTCTTAT GAAGCCACTG GTCCCATGCC ATTAAAACCC ATTAAACCAT TAACCCAGGA ATTAAGTTTC 002800 002801 AACATGAGTT TTGGAGGCGA CAAATATTCA AATCATAGCA TTGATTTGAA TATTTGTAGG GCTCTACAAC AAGGCCACTG 002880 002881 TGTCACCCAG GTTAGTAACC AATAAAACAT ACATTTTTCA TTAGTGTCTC TCAGTTGCTG AAGTATGAGG ACCCTGACTG 002960 002961 ATAGCTTTCA TCTGTATTAT TGGTGGTCGG GATGATATTA TTTTATATGT CCTAAACAGC ACCAAATATA AAGATCTCTA 003040 003041 TAATGTCCTT AAATTTTTTT TTTAATTTAG CTTTTAAAGT TATTTGAGGT TTGTAGATTT TGCTGTTTAT CTCACAAAAT 003120 003121 AACTCTGTTT CAGTTACTCT GTCTTGGACT TACTATTTTC ACCAGTTGAA ATGTGTTGTA GGAATACTGG ATGGAATTCA 003200 003201 GCATATGTAA GTTCTAGGCC CATTTTTCTT TTTTAGCAAA TAAGCTTTGC CATTATAGTT ACATTTACAT TACTTATGCC 003280 003281 CTGAAGGCCT AAGTCTTATT TGTGTAGTGA ATAGGAACAC ACACACACAC AGACACACAG ACACACACAC ATTTATCAAA 003360 003361 ATTTGATAAT ATGTAATTAA TTTAGTATTA TCAACTTGGG AATTACTGAA TTCTTTTGCT GTGCATAAAG ATTATTGAAG 003440 003441 AGCAGCATCT ACTCCCTTAG AATTTTCACA TCTAGTATTC TTTCTTTATA TTGTTAAAAT AATTTTAATA ATGATCTAAA 003520 003521 TTGGATATAA ATTCAGGTAA TTATTGCCAT CATTTTGTAT AAGTACTGTC GTATCTGGTA CTAGTTGTCT CTGACAGCAA 003600 003601 AATAAAACAT GATGATCAAT ATTTTGGATT GATTTTTTTC TGCTGGGACG ATGTGAGCAT ACACTGATTA GAGCTGATTT 003680 003681 TTGCTGCTGA TCAGTCTCTA TGAGGCAAAA TTTCAATAAT TGTTTTGTTT TTAGGTGACT TTCTTCTCTG ATGTCCAGAC 003760 003761 TGATTTGCAG ATTGCAAAGA TCCACTCTTA TAATAGAAAG AGATGCCATT AGATTAGAAA AAAAGCCACT TATCACAGGA 003840 003841 ATTACGTGCT AACACAGTGG TTCACCTTAA TGTTCTCTCT TTATAATGCC CCCTTTCAAG ATGTGCATAA TTGATATTGC 003920 003921 CATAAGCACT CTCCTATTCT TTTTGCACAG CTAAAAGAAT AGAGTGGATT AGAATACAGA GTAAAGTCTC AGGATTGCAC 004000 004001 AACAGAATTA ATCCTGTTCT ATGTCATAAA ATATTGCATT CATTAGAAAT GAATATTTTC ATTGCAAATG AACTGAGACC 004080 004081 GGCAGGTAGA CGGAGTGATT CCTTTTATTT TGTTTCTCTT AGAAGGAATG ATTCCAACAA ATGGTAAAAA TACAACTAAG 004160 004161 GTTTGGCATG TGCCAATCAC CTATTTCACA ATGTATTTTT TAGAGGAAAA CACACACACA CACACACACA CACACACACA 004240 004241 CATATATGTA TATCACAAAG TAACCCTTTT CTCTTGTGGC AGTATCTCCT TAGGTCCCAT TCATTTTTAG AACCCACATG 004320 004321 TATTCTTAGC ACCCTGTGAT ACTTGCTACC AGAGTGAACA TATTTTCCCA GCCACAACCT GATTGCATGT TCTGGATTAT 004400 004401 ACTCATATTC TCCAGAAATA ATTTAAGGAT TGAGTTCAAT AATCGTGCTC CCGAGGTGGG TGCCATCTGA AATCTAACCC 004480 004481 ATAATGTTTA CCTGCGGTGA TGATCAAGAA CCTCTCTTGA GAGAATTAGG CCCTTAGGGA TATTTTAGAG CAACGTTTAG 004560 004561 ATTTTTTAAA TAACAAAAAT CATGATCAAG AACATCTGTT GAAAGAATTA GGCCTTTATG GATATTTTAG AGCAATGTTT 004640 004641 AGATTTTTTA AATAACAAAA ATGCTAATGA GAATGATGAT GGATTCTGCT TGTTGAGTGC TTTTTGTCTT CATAAATTTC 004720 004721 CATGAGAAAG GTGTTAATGT GTCCATTTTA TGAATTAGTC ATCTGACACT CAGAACACCT AAATAACTTG CTGGAGGTCA 004800 004801 CACAGCTGGG TGAGCGACGG AGCCAGAATT TGACCTCAGC ACTGCCTGAT TATGAAGCTG TGTGTTCTGT CTGCTTTCAG 004880 004881 CTGCTGCCTC TTATTTCCAG TTCCAAGGTC AGTCTAAAAC AGTCCTCCCA AACACCCACA TATGTTGAAT CCTTATGCTG 004960 004961 AAGGCAGGTG GTGCCATGGG CTTTTCAGGG TGAGTGGTTT ATTTTTCAAG AAGCACAGAG AATTAATTCA TTAAGTGGAA 005040 005041 CTTGAGAGGC TACTCAAATA TCTGAGCTGC TGAGAAGTTC AACCTTTTTA ATTATCTGGA GTGAGACTTC CCACAATGTT 005120 005121 AAACCTTCAG AATGGTGCCA GACTCAGAAG CTCCTCTGCA GTGATTCTGA ATTGACAGAA TACAGTCAAA TAGCCAAGAT 005200 005201 GAAGTCAAGA TCTGAACATT CCAACCAGCG TGTTGCAATG GTTCTGCCAC ACAGGAAAAA GGAAAGGCGG GCTTTTGTTG 005280 005281 CTAGTGAAGG GATAATGACC AATTAAAAAA ATAAAACTGA GCAAAGAGAG ACAAAGAAGG AAATGAGACA GGGAAAGAGA 005360 005361 GAACATAGAG ATGAGCATAA AAATTGCAGA GAAAGTGAGT AAATGTAGTG TCAGAAAAGA TAAAAAAAGG TGAAATATTT 005440 005441 TGTGTAAGGG ATGACAACAG GGTGTCAAGT GACAGCTATT CTAAGAGCAC AAAAGAAACC TGAGACTAAA GAAAGAAATC 005520 005521 ATTTTTGTGA TTAAGAGAAG GATTAGGAAA CAAAAAACAA TTTAATTATT ACAGATAATA TTGCTAAGTA TTTTCGTTAC 005600 005601 ACATATGAAG TACTTCTGCG TGTGATATTT CATTTAATCC CCTCACAATA TTCCTGCGTA ATTGGTTAAG TGGATATTTC 005680 005681 AGACTTTATT TCAGAAATAT AGAAACTTAG TGCTTGATTT GTCTAGTTTC TAAAATAAGT GGTAGAGTTG AAACAAGAAA 005760 005761 ATGTGTGTTT TTTTTCACTA GGTGCTGCTA GACATCCTTG TGTGATGTTA AAAGTACATC TGCCATAACA TGGCTTTACC 005840 005841 ACGTATGCTT GGGGGCATTT AATTACTGGG CTAGTCTGGT CTTCTTTTGA AATACCCCTA GGGGATAGCG ACATGTAAAA 005920 005921 AGTGCAGCAC TGAGTGTATT TCAACTATTG CATTTTACTA ACCTGAGATT GTCAGGGTGC TTTTATTATA AAATGGAGAT 006000 006001 CAAGTATGGA AAAAAGGTAT TACTTCTGTT ACTACCGCTT TGGTGGTTAT AGAAGGTGAT GAACTGAAAC ATCAGGACCT 006080 006081 GTGGATTTTG CAACAGAGAC AAGGCCAAAC TGGCTCACCT GCAGAATAAA CAAAGGGTAA TGTCTATAAA GAGAATTGTG 006160 006161 AATAACGGTG CTTATCTGTT GTTCCTGTCT ACCCAGGATC TCTTTTCTCA TCTTCTTGGT TGTGAATACA TTAGGTGGGG 006240 006241 TTGACTCATC TCCCCTTCTC TATCCAACAT AGATTGGCAT ATGCTTTGCA CTGGGCCAGT GTTCTCCTTG GCTACTTTCT 006320 006321 GCCAGAGTAC ATGGAAAAAA CAGGTATTGC TCAGTTGTAT AGGGATCTGG GGTTGCCACT TACCATTTTA TCCATGCCAT 006400 006401 GGTGGGAGCC TGATGGAAAA CCCAGGACAG GTGGAGCCCT TGGCCCCACT GATTGAGCCT CCAGAAAATA GGATCGCCTG 006480 006481 AATCCTTGGA CTTGCCATTT GGGGTAACAA ATAAATCCTC AAGCTAGTAT AAGTTGAGAT CTGGTCACTG TAAATCAGTC 006560 006561 AAATACAAAT GCAGGTAGCT GGTGCATCAT AATAATAACC AACACTTATT GAATGTATGC TATACTAGTA AGCATTCTTT 006640 006641 AATCACTTCA TTCTCGCAGC AATCCTATGA CGTGCATGTC CATTACTGTC TCCATTTCAC AGGAAGAAAC AGAGACAGAC 006720 006721 TTGTTAGATG ACTTGTTAAA GATCAGAGAT AGGAAGAAGC AGAGCTGGGA TTTGAACTCA GGAAGTCTAG CTGTACTCTG 006800 006801 TGAACTCTAG TCATTCTCTA TCTCTCTTTG TGTATATCCC CTTGCCATAT ATGTGTAAAT GCCTTTATCT TTCTATATGT 006880 006881 GTATCTATAT CTGTCTGTAT GTTATCTCTC TGAAATATGC AAATTATTGG CAAGAATTGA ATTTATGTTA CAAATTAGAA 006960 006961 CATTAATGTT GGTTCTGTGC ATGGAAATTA GTATCTCAAA TTTCATCCCA GTGTCATGGA CAAGAATAGA AATTTCTATT 007040 007041 AGAGCTTAAA AAGAAACTAT AGATCTATGA GTGTTTTGAA AAGAGCACAA TAGGAAAATT AAAATAAGTA TAATATTGAA 007120 007121 GCATCCATAT TATATGACAT TAAGTCTCAG TAAGAGACTG AGTTAGCTGA TCAAATCTTT TAGCAGTAAA AACAAAACAA 007200 007201 AACAGACAAA AAAACAGAGG CAATCACGTA TAAGCACTAG GGCATATTTA ATATGACTGT TATTGAGGAG AAGACTGCAG 007280 007281 TTGGGAAGAA TCTTTGAACA GATACTTACT AAAAACTAAA ATATTTTGTG AGTCAGAACA TTTAGCCAAT CCAGCTACTA 007360 007361 AGATATTTCA AAGTCGAATG AGTTATCACA AAGCTAGAAG ACAAAAAACA CTGTACTGGG GAAGCTGTCT AATTTAGTTA 007440 007441 ATCCAGTTAA CTAACTTAGG CAGTTAGTGA GTCTGGTGCC AAGCTACATG TCGAATCGAA AGGGTTAAGT TTTTCACCTT 007520 007521 GCATCACTGA TATAAGGTGC TCGGAAAAGT AAATTTTATT ACTAAGAAGT GTCAAGCTCC TATGTAACTT CCTTTTGCAA 007600 007601 GAAAAAAAGC AAGAAAAGTA GGTAAACACT TAAAAAAATC TGCTCTTATG CTTTTGGAAA AAAGAATTTT CTAAGAATCG 007680 007681 TGGTTATGAT TTAGGACAGA GGTAAGCAAA TGGGCCAAAT CTGGCCCACC ACCTGTTCTT GTAAGGCCTG TATACTTGGA 007760 007761 ACGATTTTTA TGTTTATAAA TGGTTGATAA AAGTTACAAG AAGAATAATA TTGTTACTTG TGAAAATTAT ATGAAATTTA 007840 007841 AATTTTAATG TCCATACATA AGTTTTATTG GAATATAGCC ACACTAATTT CCATATTGCC TATGACTGCT TTTGTGCTAT 007920 007921 GCCAGCAGAG TTGAGTAATT GTGGTAAAGA TTGTATAACC TGCAAAGCCT AAAACATGTA CTGGTCCTTT ACAGAAGCAA 008000 008001 TTTGCCAACC CTCTATTTGG ATAATAGAGC AATGGTATTG GGAGGTACTT GAAATGTTGT AAGGAAGCAG AGTTAGTGCC 008080 008081 TAGAAACAAA CAAAGTGACA AATAAGTAAG TATATGTGGG TAGGTTTTAA ACATCCTTCC TATTGTCTTG ATATTGTTTC 008160 008161 CTGAATTAAA ACCGTAAACC AAAATTGCAT CCAAATATGC AGTGCAGTTT TAGAACCTCT TTTTTTTTTT GAATCTTTAT 008240 008241 TCTATTTATT ACCAATATGA TAAGTTATAC AACCTTTCTC AGCCTTGGTT TTCTCAATGG AAAAATTACA GAAATAATTC 008320 008321 TCTTTTTTGT GACAAGTTTA CACAACCTTC TTTGGGAGGT GATGTAGTGG GTTATCAATT TCAGCATAAC ATAGAACACA 008400 008401 TGTATTTAAT AATAGAATGA CTTCATGAAC ACTGTGTCCT GTTGAAATAT GTAGTCTCAT AAAGATAAAG CAGGGACATA 008480 008481 TTTGGGTTTT GGAATGAGGT TTTCTTAAAA TACCCATGTA AATTCTGAAA ACGTAGCCAT TCTTGGACTT CATTCACCTC 008560 008561 ATCAATGGAC TTGGAAAAGG<