RetrogeneDB ID:

retro_hsap_1491

Retrocopy
location
Organism:Human (Homo sapiens)
Coordinates:15:45212159..45213016(+)
Located in intron of:ENSG00000259742
Retrocopy
information
Ensembl ID:ENSG00000259231
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:AZI2
Ensembl ID:ENSG00000163512
Aliases:AZI2, AZ2, NAP1, TILP
Description:5-azacytidine induced 2 [Source:HGNC Symbol;Acc:24002]


Retrocopy-Parental alignment summary:






>retro_hsap_1491
ATTTGCATTGATAGACATGATTTAAAGAGCAAATTGGATAAAATGAGTAAACACAACTCTGAATCTTTAAAAGTATTGAA
TAAACAGATGCAATCTAAAGAAGTAGAACTCTAGCTAAGGACAGAGGTGGAAACTCAGCTGGTGATGAGGAATTTCAATC
CACCTTCATCAAACTGGGAGGTGGAAATGTTAAGCTGTAACCTGAAGATCCAAGGTTTGGAACAAGAGCTGATGAGGAAA
GAATATAACGATCTCAAAATAGAACTACTCAAAAACCAAACAAACCTATCTGTATGAGGAAGACAATCTTGAAGAGCAGA
GATCTCTGAAGAGTAAGAACTTCAAGTGATAATACACAGAATGTATACTGGCAACTGAAGAGATAAATGTCTAATTTATA
TCTGGTGACTCAAGTGCTAGCTGAACTATTAAGAAAACTGGAAACCCCAACTGCAATCAAGAAAGCCTGCACCTCAGTAA
GATGCATTGAAGACCCTTGGAAAGACAGCACAAAACTGCACATGATGAATTTTACTGCAACATACACAAGACATCCCCTT
CCCTGACCAAATGGCAAAGTTCTTTTTTATACTACATCTTCCCCTTTACCAGGAGATATAAAGGTTTTATCAGAGAAAGC
AGTCCTCCAATCACGGACAGATAATGAGAGAGCCATTCCTAATGAGGGCACACACTCTTATGGCAGAAATTCTCTGGAAG
ATCATTTTGAGTATTCCCAATCCCTCCTGACTCAAGTGAGACAGCATTTAGGAAAATTAAAAGTAAAATTTTGCCTTTTA
ACAAATGTGCCACTACTGCATTACTTGGATCAACATAGTCAAAATTTCCTTTATAAG

ORF - retro_hsap_1491 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.06 %
Parental protein coverage: 74.74 %
Number of stop codons detected: 4
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalVCIDRDNLKSKLDKMNKDNSESLKVLNEQLQSKEVELLQLRTEVETQQVMRNLNPPSSNWEVEKLSCDLK
.CIDR..LKSKLDKM.K.NSESLKVLN.Q.QSKEVEL..LRTEVETQ.VMRN.NPPSSNWEVE.LSC.LK
RetrocopyICIDRHDLKSKLDKMSKHNSESLKVLNKQMQSKEVEL*-LRTEVETQLVMRNFNPPSSNWEVEMLSCNLK
ParentalIHGLEQELELMRKECSDLKIEL-QKAKQTDPYQEDNL-KSRDLQKLSISSDNMQHAYWELKREMSNLHLV
I.GLEQEL..MRKE..DLKIEL..K.KQT..Y.EDNL.KSRDL.....SSDN.Q..YW.LKR.MSNL.LV
RetrocopyIQGLEQEL--MRKEYNDLKIEL>SKTKQTYLYEEDNL>KSRDL*RVRTSSDNTQNVYWQLKR*MSNLYLV
ParentalTQVQAELLRKLKTSTAIKKACAPVGCSEDLGRDSTKLHLMNFTATYTRHPPLLPNGKALCHTTSSPLPGD
TQV.AELLRKL.T.TAIKKAC..V.C.ED...DSTKLH.MNFTATYTRHP...PNGK.L..TTSSPLPGD
RetrocopyTQVLAELLRKLETPTAIKKACTSVRCIEDPWKDSTKLHMMNFTATYTRHPLP*PNGKVLFYTTSSPLPGD
ParentalVKVLSEKAILQSWTDNERSIPNDGTCFQEHSSYGRNSLEDNSW-VFPSPPKSSETAFGETKTKTLP-LPN
.KVLSEKA.LQS.TDNER.IPN.GT....HS.YGRNSLED....VFP.PP.SSETAF...K.K.LP.L.N
RetrocopyIKVLSEKAVLQSRTDNERAIPNEGT----HS-YGRNSLEDHFE<VFPIPPDSSETAFRKIKSKILP>LTN
ParentalLPPLHYLDQHNQNCLYK
.P.LHYLDQH.QN.LYK
RetrocopyVPLLHYLDQHSQNFLYK

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
bodymap2_adipose 0 .00 RPM 26 .08 RPM
bodymap2_adrenal 0 .00 RPM 17 .75 RPM
bodymap2_brain 0 .00 RPM 22 .01 RPM
bodymap2_breast 0 .00 RPM 26 .50 RPM
bodymap2_colon 0 .00 RPM 25 .60 RPM
bodymap2_heart 0 .00 RPM 12 .26 RPM
bodymap2_kidney 0 .00 RPM 22 .15 RPM
bodymap2_liver 0 .00 RPM 9 .42 RPM
bodymap2_lung 0 .00 RPM 19 .27 RPM
bodymap2_lymph_node 0 .00 RPM 15 .84 RPM
bodymap2_ovary 0 .00 RPM 25 .81 RPM
bodymap2_prostate 0 .00 RPM 22 .88 RPM
bodymap2_skeletal_muscle 0 .00 RPM 8 .57 RPM
bodymap2_testis 0 .00 RPM 30 .52 RPM
bodymap2_thyroid 0 .00 RPM 26 .63 RPM
bodymap2_white_blood_cells 0 .00 RPM 29 .71 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_hsap_1491 was not detected

EST - click to see more details

No EST(s) were mapped for retro_hsap_1491 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_hsap_1491 retrocopy 5' end.

Lab - click to see more details

retro_hsap_1491 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_hsap_1491 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 14 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000104322 retrocopies
retro_chof_1794, retro_chof_234,
Dasypus novemcinctus ENSDNOG000000110532 retrocopies
retro_dnov_1377, retro_dnov_542,
Homo sapiens ENSG00000163512 2 retrocopies
retro_hsap_1491 , retro_hsap_1564,
Gorilla gorilla ENSGGOG000000228812 retrocopies
retro_ggor_1145, retro_ggor_1189,
Loxodonta africana ENSLAFG000000085382 retrocopies
retro_lafr_529, retro_lafr_925,
Myotis lucifugus ENSMLUG000000000433 retrocopies
retro_mluc_1707, retro_mluc_435, retro_mluc_611,
Macaca mulatta ENSMMUG000000000561 retrocopy
retro_mmul_2135,
Monodelphis domestica ENSMODG000000150751 retrocopy
retro_mdom_1786,
Nomascus leucogenys ENSNLEG000000040691 retrocopy
retro_nleu_1714,
Oryctolagus cuniculus ENSOCUG000000149561 retrocopy
retro_ocun_1778,
Otolemur garnettii ENSOGAG000000058961 retrocopy
retro_ogar_3078,
Pongo abelii ENSPPYG000000140532 retrocopies
retro_pabe_1241, retro_pabe_3784,
Pan troglodytes ENSPTRG000000147071 retrocopy
retro_ptro_1052,
Tursiops truncatus ENSTTRG000000164341 retrocopy
retro_ttru_1093,

Expression level across human populations :
image/svg+xml GBR_HG00142 GBR_HG00099 GBR_HG00114 GBR_HG00143 GBR_HG00131 GBR_HG00137 GBR_HG00133 GBR_HG00119 GBR_HG00111 GBR_HG00134 FIN_HG00378 FIN_HG00338 FIN_HG00349 FIN_HG00375 FIN_HG00315 FIN_HG00277 FIN_HG00328 FIN_HG00321 FIN_HG00377 FIN_HG00183 TSI_NA20756 TSI_NA20538 TSI_NA20798 TSI_NA20532 TSI_NA20765 TSI_NA20518 TSI_NA20513 TSI_NA20512 TSI_NA20771 TSI_NA20786 YRI_NA19114 YRI_NA19099 YRI_NA18870 YRI_NA18907 YRI_NA19223 YRI_NA19214 YRI_NA18916 YRI_NA19093 YRI_NA19118 YRI_NA19213 Toscaniin Italia: Finnish inFinland: British in England and Scotland: Utah Residents (CEPH) with Northernand Western European Ancestry: Yoruba in Ibadan, Nigeria: CEU_NA12760 CEU_NA12827 CEU_NA12872 CEU_NA12751 CEU_NA12873 CEU_NA12400 CEU_NA11930 CEU_NA12004 CEU_NA11831 CEU_NA11843 No expression ( = 0 RPM ) > 0 RPM = 0.02 RPM Legend:


Library Retrogene expression
CEU_NA11831 0 .00 RPM
CEU_NA11843 0 .00 RPM
CEU_NA11930 0 .00 RPM
CEU_NA12004 0 .00 RPM
CEU_NA12400 0 .00 RPM
CEU_NA12751 0 .00 RPM
CEU_NA12760 0 .00 RPM
CEU_NA12827 0 .00 RPM
CEU_NA12872 0 .00 RPM
CEU_NA12873 0 .00 RPM
FIN_HG00183 0 .00 RPM
FIN_HG00277 0 .00 RPM
FIN_HG00315 0 .00 RPM
FIN_HG00321 0 .00 RPM
FIN_HG00328 0 .00 RPM
FIN_HG00338 0 .00 RPM
FIN_HG00349 0 .00 RPM
FIN_HG00375 0 .00 RPM
FIN_HG00377 0 .00 RPM
FIN_HG00378 0 .00 RPM
GBR_HG00099 0 .00 RPM
GBR_HG00111 0 .00 RPM
GBR_HG00114 0 .00 RPM
GBR_HG00119 0 .00 RPM
GBR_HG00131 0 .00 RPM
GBR_HG00133 0 .00 RPM
GBR_HG00134 0 .00 RPM
GBR_HG00137 0 .00 RPM
GBR_HG00142 0 .00 RPM
GBR_HG00143 0 .00 RPM
TSI_NA20512 0 .00 RPM
TSI_NA20513 0 .02 RPM
TSI_NA20518 0 .00 RPM
TSI_NA20532 0 .00 RPM
TSI_NA20538 0 .00 RPM
TSI_NA20756 0 .00 RPM
TSI_NA20765 0 .00 RPM
TSI_NA20771 0 .00 RPM
TSI_NA20786 0 .00 RPM
TSI_NA20798 0 .00 RPM
YRI_NA18870 0 .00 RPM
YRI_NA18907 0 .00 RPM
YRI_NA18916 0 .00 RPM
YRI_NA19093 0 .00 RPM
YRI_NA19099 0 .00 RPM
YRI_NA19114 0 .00 RPM
YRI_NA19118 0 .00 RPM
YRI_NA19213 0 .00 RPM
YRI_NA19214 0 .00 RPM
YRI_NA19223 0 .00 RPM

Indel association:

No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (PubMed).



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