RetrogeneDB ID:

retro_rnor_1076

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:14:90261245..90262220(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Morf4l1
Ensembl ID:ENSRNOG00000014410
Aliases:None
Description:Mortality factor 4-like protein 1 [Source:UniProtKB/Swiss-Prot;Acc:Q6AYU1]


Retrocopy-Parental alignment summary:






>retro_rnor_1076
ATGGCGCCCAAGCAGGACCCGAAGCCTAAATTCCAGGAGGGAAAGCAAGTACTGTGCTTTCATGGGCTTCTTCTTTATGA
AGCAAAGTGTGTAAAGATTGCCATAAAGGACAAACAAGTGAAATACTTTATCCATTAGAGTGGTTGGAATAAAAATTGGG
ATGAATGGGTTCCAGAAAGCAGAGTCTTCAAATATGTGGACATCAATTTGCAGAAATAGCAAGAACTTCAAAAGGCCAAT
CAGGAGCAATATCCTAAGGGCAAGATGAGAGGGGCTGCTCCAGGGAAGAAGACGTCTGGTCTGCAACAGAAAAATGTTGA
AGTGAAAATAAAAAAGAACAAGTAGAAAACACCTGGAAAACAGAGACGGTGGCAGTACCAGTGAGACATCTCAACCTCCT
AGGACGAAGAGAGAGCCTGAGTAGATACTACTGTTGAAACTGAAGAAACATTCATGAAGAGAATTGAAGTTAAAGTGAAG
ATCAATAAAGAGCTGAAACCATGGCTTGTAGATGACTGGGACTTGATCATGAGACAAAAGCATCATTTTTATCTTCCCGC
CAAGAAGAATGTGGGTTCCGTTTTGGAGGATTATGCAAATTATGAGAAGTCTCGTGGAGTAAATACAGATAATAAGGAGT
ATGCTGTTAATGAAGTTGTGGCAGGGATAAAGGAGTATTTCAATGTAATGTTGGGCACTCAGCTACTTTTCAAATTTGAG
AGACCACAGTATGCTGAAATTCTGGCCAATCACCCAGATGCACCCAGGTCCCAGTTATATGGAGCACCACATTTACTGAG
GTTATTTGTGTGAATCAGAGCCATGTTGGCCTAATGACCTCTAGATGAGAAAAGCCTTACTTTATTAGTGAACTACCTAC
CTGATTTCCTCAAGAACCTGCCGAAGAATTCTGCAACTTTGTTCAGTGCCCGTGATTACGAAGTGTCTCCTCCCAAGTAC
CATCTGAAAGCTGTG

ORF - retro_rnor_1076 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.1 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 7
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalMAPKQDPKPKFQEGERVLCFHGPLLYEAKCVKVAIKDKQVKYFIHYSGWNKNWDEWVPESRVLKYVDANL
MAPKQDPKPKFQEG..VLCFHG.LLYEAKCVK.AIKDKQVKYFIH.SGWNKNWDEWVPESRV.KYVD.NL
RetrocopyMAPKQDPKPKFQEGKQVLCFHGLLLYEAKCVKIAIKDKQVKYFIH*SGWNKNWDEWVPESRVFKYVDINL
ParentalQKQRELQKANQEQYAEGKMRGAAPGKKTSGLQQKNVEVKTKKNKQKTPG-NGDGGSTSETPQ-PPRKK-R
QK..ELQKANQEQY..GKMRGAAPGKKTSGLQQKNVEVK.KKNK.KTPG.N.DGGSTSET.Q.P..K..R
RetrocopyQK*QELQKANQEQYPKGKMRGAAPGKKTSGLQQKNVEVKIKKNK*KTPG>NRDGGSTSETSQPPRTKR<R
ParentalARVDPTVENEETFMNRVEVKVKIPEELKPWLVDDWDLITRQKQLFYLPAKKNVDSILEDYANYKKSRG-N
A.VD.TVE.EETFM.R.EVKVKI..ELKPWLVDDWDLI.RQK..FYLPAKKNV.S.LEDYANY.KSRG.N
RetrocopyA*VDTTVETEETFMKRIEVKVKINKELKPWLVDDWDLIMRQKHHFYLPAKKNVGSVLEDYANYEKSRGVN
ParentalTDNKEYAVNEVVAGIKEYFNVMLGTQLLYKFERPQYAEILADHPDAPMSQVYGAPHLLRLFVRIGAMLAY
TDNKEYAVNEVVAGIKEYFNVMLGTQLL.KFERPQYAEILA.HPDAP.SQ.YGAPHLLRLFV.I.AMLA.
RetrocopyTDNKEYAVNEVVAGIKEYFNVMLGTQLLFKFERPQYAEILANHPDAPRSQLYGAPHLLRLFV*IRAMLA*
ParentalTPLDEKSLALLLNYLHDFLKYLAKNSATLFSASDYEVAPPEYHRKAV
.PLDEKSL.LL.NYL.DFLK.L.KNSATLFSA.DYEV.PP.YH.KAV
Retrocopy*PLDEKSLTLLVNYLPDFLKNLPKNSATLFSARDYEVSPPKYHLKAV

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .00 RPM 131 .93 RPM
SRP017611_kidney 0 .00 RPM 97 .56 RPM
SRP017611_liver 0 .00 RPM 52 .18 RPM

ChIP-Seq - click to see more details

Rattus norvegicus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_rnor_1076 retrocopy.

TSS - click to see more details

Rattus norvegicus was not studied using FANTOM5 data.

Lab - click to see more details

retro_rnor_1076 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_1076 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 20 parental genes, and 55 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000123441 retrocopy
retro_amel_124,
Bos taurus ENSBTAG000000109881 retrocopy
retro_btau_137,
Canis familiaris ENSCAFG000000141131 retrocopy
retro_cfam_20,
Callithrix jacchus ENSCJAG000000022145 retrocopies
retro_cjac_2113, retro_cjac_2280, retro_cjac_2574, retro_cjac_3026, retro_cjac_3179,
Homo sapiens ENSG000001857873 retrocopies
retro_hsap_309, retro_hsap_3125, retro_hsap_850,
Gorilla gorilla ENSGGOG000000168263 retrocopies
retro_ggor_125, retro_ggor_2141, retro_ggor_694,
Loxodonta africana ENSLAFG000000098511 retrocopy
retro_lafr_62,
Macaca mulatta ENSMMUG000000229261 retrocopy
retro_mmul_1064,
Monodelphis domestica ENSMODG000000115172 retrocopies
retro_mdom_150, retro_mdom_158,
Mustela putorius furoENSMPUG000000154291 retrocopy
retro_mputfur_180,
Mus musculus ENSMUSG000000622709 retrocopies
retro_mmus_1454, retro_mmus_1697, retro_mmus_176, retro_mmus_1771, retro_mmus_1825, retro_mmus_1833, retro_mmus_2500, retro_mmus_2612, retro_mmus_289,
Nomascus leucogenys ENSNLEG000000086783 retrocopies
retro_nleu_417, retro_nleu_445, retro_nleu_51,
Oryctolagus cuniculus ENSOCUG000000151172 retrocopies
retro_ocun_108, retro_ocun_21,
Otolemur garnettii ENSOGAG000000060474 retrocopies
retro_ogar_1594, retro_ogar_2616, retro_ogar_2896, retro_ogar_50,
Pongo abelii ENSPPYG000000067034 retrocopies
retro_pabe_1046, retro_pabe_201, retro_pabe_2581, retro_pabe_695,
Pan troglodytes ENSPTRG000000073513 retrocopies
retro_ptro_2114, retro_ptro_47, retro_ptro_591,
Rattus norvegicus ENSRNOG00000014410 6 retrocopies
retro_rnor_1076 , retro_rnor_2270, retro_rnor_2357, retro_rnor_374, retro_rnor_793, retro_rnor_980,
Sarcophilus harrisii ENSSHAG000000184021 retrocopy
retro_shar_393,
Sus scrofa ENSSSCG000000017691 retrocopy
retro_sscr_93,
Ictidomys tridecemlineatus ENSSTOG000000132943 retrocopies
retro_itri_111, retro_itri_1545, retro_itri_1608,


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