RetrogeneDB ID:

retro_nleu_2204

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397334.1:5167503..5168688(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KRT19
Ensembl ID:ENSNLEG00000010787
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2204
ATGACTTCCTACAGCTACCGCCAGTAGTGGGCCAAGTAGTCCTTCGGGGGCCTGGGTGGCGGCTCGGTGAGTTTTGGGCC
GGGGGTCGCCTTTCGCGCACCCAGCATGCACTGGGGCTCCAGCGGCCGCGGTGTGTCCGTGTCCTCCGCCCGCTTAGTAT
CTGTCCTCGTCCTCCTTGAGGGGCTACAGAGGCGTCCTGGCCGCGTCCGACGGGCTGCTGGCGGGCACGAGAAGCTCAAT
ATGCAGAACCTCAACGACCCTCTGGCCTCCTACCTGGACAAGATGTGCGCCCTGGAGGCAGCCAACCGCGAGCTGGAGGT
GAAGATCCACGACTGGTACCAGACGCAGGGGCCCAGGCCCTCCCGTGACTACAGCCACTACTACAAGACCATCCAGGACC
TGAGGGACAAGATTCTTGGTGCCACCGTTGAGAACTCCGGGATTGTCCTGGAGATCGACAATGCCCGTCTGGCTGCAGAT
GACTTCCGAACCAAGACTGAGACAGAGCAGGCTCTGCGCATGAGCATGGAGGCCGACATCAACGGCCTGCGCAGGGTGCT
GGACGAGCTGACCCTGGCCAGTACCGACCTGGAGATTCAGATCGAAGGCCTGAAGGAAGAGCTGGCCTACCTGAAGAAGA
ACCATGAGGAGAAAATCAGTGGGCTGAGGGGCCAAGTGGGAGGCCAGGTCAGTGTGGAGGTGGATTCGGCTCCGGGCACC
GATCTCGCCAAGATCCTGAGTGACATGCGAAGCCAATACGAGGTCATAGCGGTGCAGAACTGGAAGGATGCTGAAGCCTG
GTTCACCAGCCGGACTGAAGAATTGAACCGGGAGGTAGCTGGCCACACGGATCAGCTCCAGATGAACCGGTCCAAGGTCG
CTGACCTGCGGCGCACTCTCCAGGGTCTTGAGCTGCAGTCACGCCTGAGCATGAAAGCCGCCTTGGAAGGCACACTGGCA
GAAACGTAGGCGCGCTTTGGAGCCCAGCTGGCGCAGATCCAGCCGCTGATCAACTGTATTGTAGCCCAGCTGGGCGATGT
GCGAGCTGATAGTGAGCGGCAGAATCAGGAGTACCAGCAGTTCATGGACGTCAAGTCGCGGCTGGAGCAGGAGATCTCCA
CCTACCGCAGCCTGCTCGAGGGCCGGGAAGATCACTACAATAACCTGTCTGCCTCCAAGGTCCTC

ORF - retro_nleu_2204 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.86 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 3
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalMTSYSYRQSSATSSFGGLGGGSARFGPGVAFRAPSIHGGSGGRGVSVSSARFVS-SSSS-GGYGGGYGGV
MTSYSYRQ..A..SFGGLGGGS..FGPGVAFRAPS.H.GS.GRGVSVSSAR.VS.SSSS..GY.G....V
RetrocopyMTSYSYRQ*WAK*SFGGLGGGSVSFGPGVAFRAPSMHWGSSGRGVSVSSARLVS>SSSSLRGYRG----V
ParentalLTASDGLLA-GNEKLTMQNLNDRLASYLDKVRALEAANGELEVKIRDWYQKQGPGPSRDYSHYYTTIQDL
L.ASDGLLA.G.EKL.MQNLND.LASYLDK..ALEAAN.ELEVKI.DWYQ.QGP.PSRDYSHYY.TIQDL
RetrocopyLAASDGLLA<GHEKLNMQNLNDPLASYLDKMCALEAANRELEVKIHDWYQTQGPRPSRDYSHYYKTIQDL
ParentalRDKILGATIENSRIVLQIDNARLAADDFRTKFETEQALRMSVEADINGLRRVLDELTLARTDLEMQIEGL
RDKILGAT.ENS.IVL.IDNARLAADDFRTK.ETEQALRMS.EADINGLRRVLDELTLA.TDLE.QIEGL
RetrocopyRDKILGATVENSGIVLEIDNARLAADDFRTKTETEQALRMSMEADINGLRRVLDELTLASTDLEIQIEGL
ParentalKEELAYLKKNHEEEISTLRGQVGGQVSVEVDSAPGTDLAKILSDMRSQYEVMAEQNRKDAEAWFTSRTEE
KEELAYLKKNHEE.IS.LRGQVGGQVSVEVDSAPGTDLAKILSDMRSQYEV.A.QN.KDAEAWFTSRTEE
RetrocopyKEELAYLKKNHEEKISGLRGQVGGQVSVEVDSAPGTDLAKILSDMRSQYEVIAVQNWKDAEAWFTSRTEE
ParentalLNREVAGHTEQLQMSRSEVTDLRRTLQGLEIELQSQLSMKAALEDTLAETEARFGAQLAHIQALISGIEA
LNREVAGHT.QLQM.RS.V.DLRRTLQGL..ELQS.LSMKAALE.TLAET.ARFGAQLA.IQ.LI..I.A
RetrocopyLNREVAGHTDQLQMNRSKVADLRRTLQGL--ELQSRLSMKAALEGTLAET*ARFGAQLAQIQPLINCIVA
ParentalQLGDVRADSERQNQEYQRLMDIKSRLEQEIATYRSLLEGQEDHYNNLSASKVL
QLGDVRADSERQNQEYQ..MD.KSRLEQEI.TYRSLLEG.EDHYNNLSASKVL
RetrocopyQLGDVRADSERQNQEYQQFMDVKSRLEQEISTYRSLLEGREDHYNNLSASKVL

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






RNA-Seq - click to see more details

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Nomascus leucogenys was not studied using ChIP-Seq data.

EST - click to see more details

Nomascus leucogenys was not studied using EST data.

TSS - click to see more details

Nomascus leucogenys was not studied using FANTOM5 data.

Lab - click to see more details

retro_nleu_2204 was not experimentally validated.

Retrocopy orthology:
Nomascus leucogenys 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 14 parental genes, and 45 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000297569 retrocopies
retro_cjac_1151, retro_cjac_1812, retro_cjac_2347, retro_cjac_2646, retro_cjac_3108, retro_cjac_3198, retro_cjac_3237, retro_cjac_3358, retro_cjac_633,
Equus caballus ENSECAG000000140862 retrocopies
retro_ecab_76, retro_ecab_931,
Echinops telfairi ENSETEG000000078816 retrocopies
retro_etel_1217, retro_etel_1319, retro_etel_191, retro_etel_480, retro_etel_685, retro_etel_95,
Homo sapiens ENSG000001713453 retrocopies
retro_hsap_3486, retro_hsap_585, retro_hsap_959,
Gorilla gorilla ENSGGOG000000169013 retrocopies
retro_ggor_2352, retro_ggor_518, retro_ggor_773,
Macropus eugenii ENSMEUG000000161583 retrocopies
retro_meug_1860, retro_meug_403, retro_meug_826,
Macaca mulatta ENSMMUG000000186534 retrocopies
retro_mmul_1770, retro_mmul_717, retro_mmul_774, retro_mmul_790,
Nomascus leucogenys ENSNLEG00000010787 3 retrocopies
retro_nleu_1609, retro_nleu_2204 , retro_nleu_800,
Oryctolagus cuniculus ENSOCUG000000161321 retrocopy
retro_ocun_1884,
Otolemur garnettii ENSOGAG000000243061 retrocopy
retro_ogar_1301,
Ochotona princeps ENSOPRG000000079082 retrocopies
retro_opri_337, retro_opri_673,
Pongo abelii ENSPPYG000000084163 retrocopies
retro_pabe_2880, retro_pabe_603, retro_pabe_820,
Pan troglodytes ENSPTRG000000091683 retrocopies
retro_ptro_2074, retro_ptro_2359, retro_ptro_430,
Ictidomys tridecemlineatus ENSSTOG000000144032 retrocopies
retro_itri_1514, retro_itri_697,


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