RetrogeneDB ID:

retro_fcat_1509

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:D2:53721715..53722595(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NUDT9
Ensembl ID:ENSFCAG00000003315
Aliases:None
Description:nudix (nucleoside diphosphate linked moiety X)-type motif 9 [Source:HGNC Symbol;Acc:8056]


Retrocopy-Parental alignment summary:






>retro_fcat_1509
AATGGCGCAGCTGAGCATGCCCACAAGAAGGCCAGGACATCTCTGTACCCTGGCTCTAAAGTGGAGCAAAGCCAGGTCCC
CAACGAGAAAGTGCCTGGCTGGTCGAATGGACAGAGTACAAACCTGTCGAGGACACTGCTGGCTCTGTCTTGGCCCAGAC
CATGTGGGCAGACCCTGAAGTGGGGGAAAGGAACTTCTTTCCTAAACTCAACGAAAGGGATGGGCATGTTGAAAGAAGGA
GCCAGAATGGCTTGTATGAGCTTGAAAATGGCAGACCCAGAAATCCTGCAGGTCAGACAGGCTTGGGTGGCAGAGGGCTT
TTAAGGCAGTGGGTCCCAAATCGTGCTGCAGACCCCATCTCAACCAGGTGGAAAAAGGATAGCACGGGAAATAAAGTTTC
CCATCCTGTTTCTGAGAGAAGCATCCTGCAATTTGTAGCCATCAAAAGGAAGGACTGTGGAGAATGGGCCATCTCAGGGG
GAATGGTGGAGCCGGGAGAGAAAATTAGTACCACACTGAAGAGAGAATTTGGTGAGGAAGCCATGAACTCCTTACAGAAA
TCCAGAGCAGAAACACAGGAGTTGAAGAAACAACTTCACAAACTATTCAGCCAGGAACACCTTGTAGTCTATAAAGGCTA
CGTGGATGATCCTTGAAACACAGATAATGTGTGGATGCAGACGGAAGCTGTGACTACCATGATGAAACGGGTGAGGTGAT
GGACGAGCTTCCTCTGGAAGCCGGTGATGATGCCAAGAAAGTGAAGCGGGTGGACGTCACTGATCAACTCAGGCTTTGTG
CCAGACATTCCCAGTTCATTCAATCTGTGGCTGAGAAACGAGGTGCCCACTGGAGTGAGGGCACGTGTCCCAGGTGCCGT

ORF - retro_fcat_1509 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75. %
Parental protein coverage: 98.66 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalNGAKENSHNKARTSPYPGSKVQRSQVPNEKV-GWFVEWQDYNPVEYTAVSVLAGPRWADPQISESNFFPK
NGA.E..H.KARTS.YPGSKV..SQVPNEKV..W.VEW..Y.PVE.TA.SVLA...WADP...E.NFFPK
RetrocopyNGAAEHAHKKARTSLYPGSKVEQSQVPNEKV<AWLVEWTEYKPVEDTAGSVLAQTMWADPEVGERNFFPK
ParentalFNEKDGHVERKSQNGLYEIENGRPRNPAGRTGLIGRGLLGRWGPNHAADPIITRWKRDRSGNKITHPVSG
.NE.DGHVER.SQNGLYE.ENGRPRNPAG.TGL.GRGLL..W.PN.AADPI.TRWK.D..GNK..HPVS.
RetrocopyLNERDGHVERRSQNGLYELENGRPRNPAGQTGLGGRGLLRQWVPNRAADPISTRWKKDSTGNKVSHPVSE
ParentalKNILQFVAIKRKDCGEWAIPGGMVDPGEKISATLKREFGEEALNSLQKSSAEKRELEEQLHKLFSQEHLV
..ILQFVAIKRKDCGEWAI.GGMV.PGEKIS.TLKREFGEEA.NSLQKS.AE..EL..QLHKLFSQEHLV
RetrocopyRSILQFVAIKRKDCGEWAISGGMVEPGEKISTTLKREFGEEAMNSLQKSRAETQELKKQLHKLFSQEHLV
ParentalIYKGYVDDPRNTDNAWMETEAV-NYHDETGEIMDNLTLEAGDDAGKVKWVDISDQLQLYASHSQFIKLVA
.YKGYVDDP.NTDN.WM.TEAV..YHDETGE.MD.L.LEAGDDA.KVK.VD..DQL.L.A.HSQFI..VA
RetrocopyVYKGYVDDP*NTDNVWMQTEAV<DYHDETGEVMDELPLEAGDDAKKVKRVDVTDQLRLCARHSQFIQSVA
ParentalEKRDAHWSENSDAECR
EKR.AHWSE.....CR
RetrocopyEKRGAHWSEGTCPRCR

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 .11 RPM 19 .40 RPM
SRP017611_kidney 0 .00 RPM 23 .19 RPM
SRP017611_liver 0 .00 RPM 17 .89 RPM

ChIP-Seq - click to see more details

Felis catus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_fcat_1509 retrocopy.

TSS - click to see more details

Felis catus was not studied using FANTOM5 data.

Lab - click to see more details

retro_fcat_1509 was not experimentally validated.

Retrocopy orthology:
Felis catus 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 22 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000032441 retrocopy
retro_amel_612,
Bos taurus ENSBTAG000000113541 retrocopy
retro_btau_1112,
Canis familiaris ENSCAFG000000095291 retrocopy
retro_cfam_1271,
Callithrix jacchus ENSCJAG000000061591 retrocopy
retro_cjac_1047,
Equus caballus ENSECAG000000195561 retrocopy
retro_ecab_123,
Echinops telfairi ENSETEG000000191641 retrocopy
retro_etel_348,
Felis catus ENSFCAG00000003315 1 retrocopy
retro_fcat_1509 ,
Homo sapiens ENSG000001705021 retrocopy
retro_hsap_709,
Gorilla gorilla ENSGGOG000000147771 retrocopy
retro_ggor_602,
Loxodonta africana ENSLAFG000000113911 retrocopy
retro_lafr_224,
Macropus eugenii ENSMEUG000000121234 retrocopies
retro_meug_1072, retro_meug_1345, retro_meug_1758, retro_meug_2162,
Monodelphis domestica ENSMODG000000207382 retrocopies
retro_mdom_157, retro_mdom_706,
Mustela putorius furoENSMPUG000000022581 retrocopy
retro_mputfur_585,
Nomascus leucogenys ENSNLEG000000095201 retrocopy
retro_nleu_464,
Oryctolagus cuniculus ENSOCUG000000026702 retrocopies
retro_ocun_1045, retro_ocun_990,
Ochotona princeps ENSOPRG000000040551 retrocopy
retro_opri_1152,
Pongo abelii ENSPPYG000000149141 retrocopy
retro_pabe_613,
Pan troglodytes ENSPTRG000000162591 retrocopy
retro_ptro_506,
Pteropus vampyrus ENSPVAG000000048291 retrocopy
retro_pvam_475,
Sus scrofa ENSSSCG000000092231 retrocopy
retro_sscr_447,
Tursiops truncatus ENSTTRG000000042071 retrocopy
retro_ttru_1549,
Vicugna pacos ENSVPAG000000040121 retrocopy
retro_vpac_125,


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