RetrogeneDB ID:

retro_dord_622

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_42068:8406..8839(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSDORG00000000974
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dord_622
GCTCCTGCCCCTCCTGAACCTAGAGCCAAGGAAAAGGCTTTAAAGGCCAAGAAGGTGGTGCTGAAAGGCGTCTACAGCCA
CAAAAAGAAGAAGATCCGCACTTCACCCACCTTTTGGCAGCCCAAGGTGTGTGGCTCTGGAGACCTCCCAAATACCCTGG
GAAGAGTGCTCAGAGGAGAAACTAGCCTGCCCACCATGTTATCATCATTCCCCCGACCACCGAGTCGGCCACAAAGAAGA
TAGAAGACAACAGCACACTTGTGCTCACTGCGGATGTCAAGCCAACAAGCATCCAATCAGACAGGCTGTGAAGAAGCTCT
GCAATACTGATGTGGCAAATACCCTGACCAGACCTGATGGAAAGGAGTAGGTCCATGTTCCACTAGCTCCTGATTAGGAT
GCTTTAGGTGTTGCCAACAAAACTGGAATCATC

ORF - retro_dord_622 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.33 %
Parental protein coverage: 81.77 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalAPAPPKAEAKEKALKAKKAVLKGVHSHKKKKIRTSPTFRRPKT-LRLRRQPKYPRKSAPRRNKLDHYAII
APAPP...AKEKALKAKK.VLKGV.SHKKKKIRTSPTF..PK....L.R.PKYP.KSA.RRN...H..II
RetrocopyAPAPPEPRAKEKALKAKKVVLKGVYSHKKKKIRTSPTFWQPKV<VWLWRPPKYPGKSAQRRN*PAHHVII
ParentalKFPLTTESAMKKIEDNNTLVFIVDVK-ANKHQIKQAVKKLYDIDVAKVNTLIRPDGEKKAYVRLAPDYDA
..P.TTESA.KKIEDN.TLV...DVK.ANKH.I.QAVKKL...DVA..NTL.RPDG.....V.LAPD.DA
Retrocopy-IPPTTESATKKIEDNSTLVLTADVK<ANKHPIRQAVKKLCNTDVA--NTLTRPDGKE*VHVPLAPD*DA
ParentalLDVANKIGII
L.VANK.GII
RetrocopyLGVANKTGII

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_622 was not experimentally validated.

Retrocopy orthology:
Dipodomys ordii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 6 parental genes, and 117 retrocopies.

Species Parental gene accession Retrocopies number
Dipodomys ordii ENSDORG00000000974 10 retrocopies
Gorilla gorilla ENSGGOG0000001673626 retrocopies
Loxodonta africana ENSLAFG0000001338716 retrocopies
Monodelphis domestica ENSMODG000000192973 retrocopies
Ochotona princeps ENSOPRG0000001262049 retrocopies
Sarcophilus harrisii ENSSHAG0000001454913 retrocopies



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