Repbase Reports

2010, Volume 10, Issue 8
August 31, 2010
Copyright © 2001-2016 - Genetic Information Research Institute
ISSN# 1534-830X
Page 1185

IMPB_02

Consensus of repeated region of rat chromosome 4 similar to mouse chromosome 6 repeated region, enclosed in the intergenic region between genes Hrh1 and Atg7.

Submitted:
11-Aug-2010
Accepted:
31-Aug-2010
Key Words:
Simple Repeat; pattern of tandem duplications; intergenic region; histamine receptor H1; autophagy related 7 gene; conserved synteny region; mouse periodicity pattern IMPB_01; high similarity with part of IMPB_01; IMPB_02
Source:
Rattus norvegicus
Organism:
Rattus norvegicus
Taxonomy:
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Rattus
[1] Authors:
Tetuev,R.K., Dedus,F.F. and Nazipova,N.N.
Title:
Consensus of repeated region of rat chromosome 4 similar to mouse chromosome 6 repeated region, enclosed in the intergenic region between genes Hrh1 and Atg7.
Journal:
Repbase Reports 10(8), 1185-1185 (2010)
Abstract:
The region of rat chromosome 4 (Rattus norvegicus strain BN / SsNHsdMCW, reference assembly RGSC_v3.4) located at 150441813-150766559 contains approximately 155 tandem copies of a pattern with average length 2171 bps. The RGSC_v3.4 assembly of the region includes a number of N-gaps and there are only 25 continuous segments suitable for building the consensus: 150441813..150457014 (x7), 150571950..150576291 (x2), 150580893..150587402 (x3), 150588044..150594550 (x3), 150627376..150631711 (x2), 150640535..150642704 (x1), 150735114..150741625 (x3), 150752372..150756712 (x2), 150762213..150766559 (x2). Nevertheless the other incomplete segments show a high partial homology with the consensus and correlate with period of general periodicity. This rat periodicity pattern is highly similar (> 70%) to the periodicity pattern on the 6-th mouse chromosome (IMPB_01) and lies in the same conserved synteny region. Both are located in the intergenic region between genes Hrh1 (histamine receptor H1) and Atg7 (autophagy related 7 gene). It is assumed that the periodicity is a characteristics of rodent genomes.
Derived:
[1] (Consensus)
Download Sequence - Format:
IG, EMBL, FASTA
References:

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