ENST00000604258.1

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NAMA, a novel non-protein coding RNA, which was associated with MAP kinase pathway and growth arrest, may related to growth arrest.

Contents

Annotated Information

Name

NAMA: non-protein coding RNA, associated with MAP kinase pathway and growth arrest(HGNC nomenclature)

Characteristics

NAMA lacks significant ORFs and with most exons showing very low sequence identity between human and mouse, which suggests that NAMA is not a protein-coding gene but a noncoding RNA (ncRNA). NAMA might belong to a class of large ncRNAs that were recently identified and transcribed from intergenic or intronic regions and whose functions are still unknown[1].

Function

The unspliced NAMA is the active form, perhaps in a tissue specific manner. NAMA may behave as a multifaced molecule or has dual effects depending on the stimuli to which it reacts[1].

Regulation

NAMA was induced when MAP kinase pathway was blocked by U0126, which decreased the level of phospho-ERK, resulting in cell cycle arrest in G1. This induction occurred in the PTC cell lines as well as in HCT116 cells that have a mutation in KRAS, suggesting that regulation of NAMA by the MAP kinase pathway is not restricted to PTC cell lines[1].

Diseases

  • growth arrest

Expression

Primer pairs for PCR and/or RT-PCR Forward Reverse
D9S176 5'-aaatgaccaatggcagggta-3' 5'-gaccccgaagccttacaaat-3'[1]
9Q3 5'-tgaggttaaatttgggaaacca-3' 5'-ggcgacaaagcaagactcta-3'[1]
TGFBR1 5'-agctgtgaagccttgagagtaatg-3' 5'-tacactgctgcaaaaggaagca-3'[1]
EST (-1) 5'-tgggtcatgtgagagacttggc-3' 5'-caggctgttcaaaggcacatc-3'[1]
EST1 5'-cccgtcttcttttgatgacc-3' 5'-tgggatggctgacttgtgta-3'[1]
EST7 5'-ccaaaggcagttgactcaaaca-3' 5'-tcccatttcataggttgcatga-3'[1]
NR4A3 5'-ggggagtggctcgactctat-3' 5'-gcctgtcccttactctggtg-3'[1]
p21 5'-ttgtacccttgtgcctcgct-3' 5'-aatctgtcatgctggtctgcc-3'[1]
PUMA 5'-gacgacctcaacgcacagtac-3' 5'-gacgacctcaacgcacagtac-3'[1]
SiRNA oligo names Sequence
siBRAF(WT) 5'-AAGUGGCAUGGUGAUGUGGCAUU-3'[1]
siBRAF(scrambled) 5'-AAGUCCAUGGUGACAGGAGACUU-3'[1]
siN-con 5'-ACAGAAGAUUCAUGAUAUAUU-3'[1]
siN-210 5'-GGUCCAUGUUAAAGGAUAUUU-3'[1]
siN-630 5'-UUCGAGCUGUUAACAUAGAUU-3'[1]


Labs working on this lncRNA

  • Human Cancer Genetics Program, Comprehensive Cancer Center, The Ohio State University, Columbus, OH 43210, USA.[1]

References

  1. 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 Yoon H, He H, Nagy R, Davuluri R, Suster S, Schoenberg D, et al. Identification of a novel noncoding RNA gene, NAMA, that is downregulated in papillary thyroid carcinoma with BRAF mutation and associated with growth arrest[J]. International journal of cancer Journal international du cancer. 2007,121(4):767-75.

Basic Information

Transcript ID

ENST00000604258.1

Source

Gencode19

Same with

NAMA

Classification

intergenic

Length

2133 nt

Genomic location

chr9-:102117692..102137509

Exon number

10

Exons

102117692..102117884,102121667..102121791,102121982..102122159,102122670..102122781,102128681..102128825,102129943..102130090,102132014..102132150,102133136..102133738,102136288..102136689,102137420..102137509

Genome context

Sequence
000001 GAATTTGTCA GCCAGGACTT ACCAGGACTT GTGATAGAAC AAAATTGCCA GTGGGGAACT TGAGGCTCAT TCCTCATAGA 000080
000081 GAACCAACAG GCTCCAAATC ACCAAACTTC TTTGCCTCTC TGGGAAAACT AAATGACCCA CCACTTCAGA AGAAGGTCAT 000160
000161 GGGGTCTGTG CACAGCTTTT CACATCCTCC CTGAAACACC AACACGCCCG GTCCAGGTTA AAGGATATCA GCACTGCCAC 000240
000241 ACACTCTTCT TTTTCCCAAA TTAATCAAGA AGTAGGAATT TCTGACAAAT GCCATCTGCT GATTTTTCAG AGAGACAAGT 000320
000321 TTTGGTGGTG TGACCAGCAG GTGCCTCGGC TTTTTCTAGC ATGCAGTACC AAAATAGTCA CCATGGCAAC CCTGGGAGGG 000400
000401 CAGACTTCCA AAGAGATGCA TTGTGAGCTC AGAAACTCTA GAGCACTTTC AAGCTAAAAG GAAGGAGGCT CAGCAGTGGG 000480
000481 TTTCCAACTG TGCCTCCTTC CTTGGTTCAC AATGACAGTC CAACTTCTGC CAGTCCTGAC TGTCATTCAA GCCTTTTTGC 000560
000561 TATTTAAGAA TTTTGAGGAA GAAAACCGTC ATGTACTCAA AATCCTGGTA ATCAGAAGTG TCTGGAGATT TCGAGCTGTT 000640
000641 AACATAGAGA GGTGGCAAAA TTATTTTCTG GGATATCCTT ATGGGCCTGA ATGGCAGCGG GAGTCGACAT AGCTGGTGCC 000720
000721 TGGGCAGGTT TCCAAAGCAC AGCCGAGGTG GAGAGTAGGT GAGGGCTGCA ACAAAGGTCC CGACATCTGA AGAGCACTGC 000800
000801 ACAGTTTGTC AGAGGATTTC AGCTCCACAC TCTCACTTAG TCCTCACAGC AACCCCATGC AGTGACTGCT GTCACTTCTT 000880
000881 TTCATGGCTG AGAAGACTGT TGGGAGAGGA AAAATGAATT GCCCACTGGC AGGCAGGTAA GAGGCACAGC TGAAACTCTC 000960
000961 ACCTAGTTCT TCTGACTCCA AGCCCATCAT CTCAGGATTG TACCCAAGTG GCTCTTGCAC CAGTATCAGC GCCAATGGCA 001040
001041 GGGTCAGCAG AAAATAGCAG AGGGGCCTGA AAACAGATGG GAACATCTGG AAAAGGCAGT GGGGAGCTGT TGAGAGCATT 001120
001121 TTGAGTGGGG CAGTGACACT GCTGGCTCTG CATTTTGGAA AGGTGGTTTT CAGAGCAGTT TGGATGATGC TGGGGAGTAG 001200
001201 CTGACAGGTT GAAGATCAGT CCTGAGGAGC AGATTCATAA TCCACTTAGG AAAAAGGAGG GGGGATGCAC GGAGTTAGCA 001280
001281 CATATTAAGT GCCTGCTGTA GTCAAGCCCT GTTGGACACC AGGGACATCT GGACCTTGAC AACGGAGCGA AGGGGTGGTC 001360
001361 CTGCCTGCAC CAGGTTTCAG CTGACCCTCC CTGCATCTTG GTCCCAGTGG CTTCTCAGGC TTCTCTGCAG CATGGGTGTT 001440
001441 CCTGCCTTGG CCAGAGCCGA AATCCCAGAG CAGTGAAAGA GGAGCCAGTG TCATGGGGCT TCTGGTTTCA GGACACACTG 001520
001521 GAAAGGCTGG TCCCTGAGTG CTCCAAGGAC CCATGCATCT GACCATAGGG GATGCTGGGA GTATCCTCCA TCCTGGCCTG 001600
001601 AAAGAGCTCC CTTTCAGCTT CCTGGATTCA TATCTGTCTT TCTGAAAACT GACTTCCCAT ATTCCCAAAG CCATCGCCAG 001680
001681 CTCCCAGCTT TGTCATTCAG GAAAAAGAGT ATGCACCTCC CCTTCATCCT CCTCATCTCT CACCATCATT AAGTACAAGC 001760
001761 CCAAGGAGAA GAATCAAGGG CAATGAATCT TCATCAAACA ATAAAATCCT GCCTGGGTCC AGCCACTTTG TCACAAGCTA 001840
001841 CATCTATGGC GAGCAACGAC TCCCGGCTGC AGGGTGAGAC AGATAAGAGG ATAAGAGGGA GCAGGAGCAG ACGGAGAAAG 001920
001921 AAGGTGGCAA GACAGAGCAG ACTGTGGGTT CTCTCAACAG GGTGAACATG AAAAATAGAA GCCTCCAGTT TCTCCTGATA 002000
002001 GTGTATAGAT GGGCAGATCT GGCCTCAATG GCAGAAGATA CTTGGGGAAC TGGAGAAAGT ACAGAAGGTG ATGTGAAATC 002080
002081 AATTGGGTCA TCAAAAGAAG ACGGGTGTAC CACAATTTGT TCCTCCACCT GCT
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