Difference between revisions of "NONHSAT119676"

From LncRNAWiki
Jump to: navigation, search
Line 2: Line 2:
  
 
==Annotated Information==
 
==Annotated Information==
−
===Transcriptomic Nomeclature===
+
===Name===
−
Please input transcriptomic nomeclature information here.
+
HOXA3as
 +
 
 +
===Characteristics===
 +
Antisense to the long isoform of HOXA3 and to the 3' end of HOXA4 ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]). Several spliced, overlapping, transcripts are present at this locus ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]).
  
 
===Function===
 
===Function===
 
Please input function information here.
 
Please input function information here.
 +
 +
===Expression===
 +
Various antisense transcripts show similar expression profiles to each other and to HOXA3 and HOXA4. Expressed in the lung, kidney and testis ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]). Expression can be induced by retinoic acid [http://www.ncbi.nlm.nih.gov/pubmed/17185360 (Sessa (2007))]. Shows collinear regulation of expression like HOX PTC genes ([http://www.ncbi.nlm.nih.gov/pubmed/17185360, Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]).
 +
 +
===Conservation===
 +
Antisense transcripts to HoxA3 and HoxA4 also exist in mouse but unclear if they are homologous.
 +
 +
===Misc===
 +
Example accession is: BC035889
 +
 +
===Transcriptomic Nomeclature===
 +
Please input transcriptomic nomeclature information here.
  
 
===Regulation===
 
===Regulation===
 
Please input regulation information here.
 
Please input regulation information here.
−
 
−
===Expression===
 
−
Please input expression information here.
 
  
 
===Allelic Information and Variation===
 
===Allelic Information and Variation===
Line 43: Line 55:
 
}}
 
}}
 
[[Category:Antisense]]
 
[[Category:Antisense]]
−
 
−
{{lncrnadb|
 
−
tID = NONHSAT119676|
 
−
ltID = HOXA3as|
 
−
ann = <tab class=wikitable sep=tab head=top>
 
−
Section Description
 
−
ID HOXA3as
 
−
Characteristics Antisense to the long isoform of HOXA3 and to the 3' end of HOXA4 ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]). Several spliced, overlapping, transcripts are present at this locus ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]).
 
−
Expression Various antisense transcripts show similar expression profiles to each other and to HOXA3 and HOXA4. Expressed in the lung, kidney and testis ([http://www.ncbi.nlm.nih.gov/pubmed/17185360 Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]). Expression can be induced by retinoic acid [http://www.ncbi.nlm.nih.gov/pubmed/17185360 (Sessa (2007))]. Shows collinear regulation of expression like HOX PTC genes ([http://www.ncbi.nlm.nih.gov/pubmed/17185360, Sessa (2007)], [http://www.ncbi.nlm.nih.gov/pubmed/17445766 Sasaki (2007)]).
 
−
Conservation Antisense transcripts to HoxA3 and HoxA4 also exist in mouse but unclear if they are homologous.
 
−
Misc Example accession is: BC035889
 
−
</tab>|
 
−
}}
 

Revision as of 02:25, 10 October 2014

Please input one-sentence summary here.

Annotated Information

Name

HOXA3as

Characteristics

Antisense to the long isoform of HOXA3 and to the 3' end of HOXA4 (Sessa (2007), Sasaki (2007)). Several spliced, overlapping, transcripts are present at this locus (Sessa (2007), Sasaki (2007)).

Function

Please input function information here.

Expression

Various antisense transcripts show similar expression profiles to each other and to HOXA3 and HOXA4. Expressed in the lung, kidney and testis (Sessa (2007), Sasaki (2007)). Expression can be induced by retinoic acid (Sessa (2007)). Shows collinear regulation of expression like HOX PTC genes (Sessa (2007), Sasaki (2007)).

Conservation

Antisense transcripts to HoxA3 and HoxA4 also exist in mouse but unclear if they are homologous.

Misc

Example accession is: BC035889

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

Please input cited references here.

Basic Information

Transcript ID

NONHSAT119676

Source

NONCODE4.0

Same with

,

Classification

antisense

Length

2074 nt

Genomic location

chr7+:27161536..27168379

Exon number

4

Exons

27161536..27161645,27162086..27162285,27163079..27164229,27167819..27168379

Genome context

Sequence
000001 GGAAAAGGAA ACGCCAAGAC ATAGAAAACC ACGCTTTTCC CGTAGGAAGA ACCGATGATG AGCCCTGATG AAAGAAGGAA 000080
000081 GAAGACCCGC TGTCTGCGAA GGCCTAAAGG CCGCGGTTGC CAGGAACCGT GGAGGGCCAA CTCCTCCCAA CCGCCCTGGT 000160
000161 GCAAAGTCCC ACGCGGCGAA GAGTTTTGGA GCAGCGCTTA CCTAGAAAGA TGTTTAAATT CTGAACCAGG AATTGTCTCC 000240
000241 AACTCCAGGC GCTCAGGGAA TCGCCTTTTC CGGTGTCCAG GCGCTCTGCA GACAAATAAA CAGCAGAAGC AAATGGTCAC 000320
000321 CGAGCCGGCA GTCAGCTTTC TGGGAGTGGG AGATGATGGG GAAAGAGGAA AGAATCGTCC GCTCGCCGGA CCCTGGCTTG 000400
000401 GAGAAGTTCT GCGCTCCGCT GGGACTCTGC GGGCCCTTTG CGTCTACAGA CCTATCCCTG CCCCGACTAC CCCTTCACTC 000480
000481 AGACCCAGGT AACCTCTTAC CCCAGCCTGC CCCAAACCAG CCCTCCGCTG TCTGTCTGCC TTCACGCAAT TCTGTAGATA 000560
000561 GCGCTAAGAG GGGATATCAA ATAGCTGAGG AGTCCCCTGA CCCCTGGCTT CGGAGCCCCC TAGCACGTGG AACAAGTGGC 000640
000641 CGCACACCGG TAGCTGCGCT CTGCCACAGT TCGACCCGTA GCCCCCACAA ACCAAAGGAA AAGGACCCAG GATCCACGCT 000720
000721 GCGCGCTGCG CCCCCTTTCT CTTGTTCAAA CTTGCTTTCT GTGTCCCCAA AGGGAGTGCC CCCTGGTCTT GGGGCTCCTG 000800
000801 GCATGACCAT GAGCAAGGTG GACTCAGCCA TCCTGCACTT TGCCTCTCAA TTTCATTCCA GAAAGATCCG CTATGCCGCC 000880
000881 ACCCACCACT CCCCTGCGTG ACACTTAGGA GTATGTAATT ATTATGGTTA TTATTTTTGC TGTTTCCTTA TCTCCAAGTC 000960
000961 TAATATTCAT GGCTGCTGTA CCCCATAAAT CGTTCAGACT AATGAGTCAC AGAGAGATGC TGCCCAGGTC TCTCACTTTA 001040
001041 CAATGGCTGC CGCCGCCGCC GTGGCCTCTC TCTCCGCGTT TTTGGCGCTC GCTTGCTCCC TCGCTCGCCC GGCGCGGGTG 001120
001121 ATTTATGAAC GCCGGGAAAA TTGAACAAAG CCGCGCGCCC GTCCTGTGGT ATCTCTGCAG CCTTCCCCAG CGTGAATCAG 001200
001201 AACATTACCA ACTGTCTGCG CATCCGTCCC ACTTCATCAC CAAAGCCAGG ATGTGACCGC AGAAAACCCA AGCCCGAACT 001280
001281 CACGTTTCCC CGGACGCGGC GCGCTCCCTG GACTCGCAGA AACCCTGCGG AAAAGGCCCC AAGATCTGGT GAGGGCCTGC 001360
001361 CAGCTCCGTC CTCCCTGCCG AGGGCTCTCT CCTGCCTTCC TGAAGGAGTT AAAAGCCTTT GGAGATAAAT CTGAGGGTGT 001440
001441 GTGTTTTTAA AAATCAAATG GGAAGGACAC GTTTCTATGC CTTACAGAGA CTTGAATCCT GAAAGCCTGG CCAAGTTTGG 001520
001521 GAAGAAGAGG AGCCCTCTCA GAGCTCAAGA GCCTTCCTAC TCTTTGGAAC TTTTCCACAG TAGGCCAAGC TTGACAAGAG 001600
001601 TTCAGCTCAA GTTGAACATA CATACACACA CTCTCACACA CAAATTATGT GAGCCGTCAG AATCCAAGTG AATCCATCTC 001680
001681 AAGCTATCTA CAAGGTTTTT ACATGCAAGG TCAAGTATCT CAATCCAGAG GACTTTTGTT TTCTTAATGA AAAGCTTAGA 001760
001761 AAACACATGA ATCTTAGATT TTTAATGTTT TTTAAATGGA GTTTATTCTT AGCACATGGC TTTCTATGTA GCCACATCAC 001840
001841 AATTTGTACA GTTCCACATA AGTCTAAATG CACTCCCCTC TCCCCAAAGA CCGTGCCCCA GAAGGTGACA ACAGTATCTC 001920
001921 TGTAACAGTG TCTTAAATAA ATGCAAGTAA GAAAAACTAA CATGTCACAC CTACCATCAA GGTCTACACA TCTTAAGAAT 002000
002001 TAAATAATCT TGTGAGGTCC AAAAAAAAAA AAAAAAAAAA AAAAAAAAAA AAAAAAAAAA AAAAAAAAAA AAAA
[back to top]

Predicted Small Protein

Name NONHSAT119676_smProtein_923:1120
Length 66
Molecular weight 7479.9524
Aromaticity 0.107692307692
Instability index 87.5123076923
Isoelectric point 12.3991088867
Runs 12
Runs residual 0.0343269230769
Runs probability 0.0216760878526
Amino acid sequence MVIIFAVSLSPSLIFMAAVPHKSFRLMSHREMLPRSLTLQWLPPPPWPLSPRFWRSLAPS
LARRG
Secondary structure LEEEEEELLLHHHHEEEELLLLLEEELLHHHLLLLLLLLLLLLLLLLLLLHHHHHHHHHH
HHLLL
PRMN HHHHHHHHHHHHHHHHHHLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL
LLLLL
PiMo i???????????????????????????????????????????????????????????
?????
Retrieved from "https://ngdc.cncb.ac.cn/lncrnawiki1/index.php?title=NONHSAT119676&oldid=890528"