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 symbol: AZI2
• Ensembl ID: ENSG00000163512
• Aliases: AZI2, AZ2, NAP1, TILP
• Description: 5-azacytidine induced 2 [Source:HGNC Symbol;Acc:24002]

Sequence

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

Alignment

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:

Parental  VCIDRDNLKSKLDKMNKDNSESLKVLNEQLQSKEVELLQLRTEVETQQVMRNLNPPSSNWEVEKLSCDLK
          .CIDR..LKSKLDKM.K.NSESLKVLN.Q.QSKEVEL..LRTEVETQ.VMRN.NPPSSNWEVE.LSC.LK
Retrocopy ICIDRHDLKSKLDKMSKHNSESLKVLNKQMQSKEVEL*-LRTEVETQLVMRNFNPPSSNWEVEMLSCNLK

Parental  IHGLEQELELMRKECSDLKIEL-QKAKQTDPYQEDNL-KSRDLQKLSISSDNMQHAYWELKREMSNLHLV
          I.GLEQEL..MRKE..DLKIEL..K.KQT..Y.EDNL.KSRDL.....SSDN.Q..YW.LKR.MSNL.LV
Retrocopy IQGLEQEL--MRKEYNDLKIEL>SKTKQTYLYEEDNL>KSRDL*RVRTSSDNTQNVYWQLKR*MSNLYLV

Parental  TQVQAELLRKLKTSTAIKKACAPVGCSEDLGRDSTKLHLMNFTATYTRHPPLLPNGKALCHTTSSPLPGD
          TQV.AELLRKL.T.TAIKKAC..V.C.ED...DSTKLH.MNFTATYTRHP...PNGK.L..TTSSPLPGD
Retrocopy TQVLAELLRKLETPTAIKKACTSVRCIEDPWKDSTKLHMMNFTATYTRHPLP*PNGKVLFYTTSSPLPGD

Parental  VKVLSEKAILQSWTDNERSIPNDGTCFQEHSSYGRNSLEDNSW-VFPSPPKSSETAFGETKTKTLP-LPN
          .KVLSEKA.LQS.TDNER.IPN.GT....HS.YGRNSLED....VFP.PP.SSETAF...K.K.LP.L.N
Retrocopy IKVLSEKAVLQSRTDNERAIPNEGT----HS-YGRNSLEDHFE<VFPIPPDSSETAFRKIKSKILP>LTN

Parental  LPPLHYLDQHNQNCLYK
          .P.LHYLDQH.QN.LYK
Retrocopy VPLLHYLDQHSQNFLYK

Legend:

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

Expression

RNA-Seq

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

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

EST

No EST(s) were mapped for retro_hsap_1491 retrocopy.

TSS

No TSS is located nearby retro_hsap_1491 retrocopy 5' end.

Lab

retro_hsap_1491 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_hsap_1491 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010432	2 retrocopies	retro_chof_1794, retro_chof_234,
Dasypus novemcinctus	ENSDNOG00000011053	2 retrocopies	retro_dnov_1377, retro_dnov_542,
Homo sapiens	ENSG00000163512	2 retrocopies	retro_hsap_1491 , retro_hsap_1564,
Gorilla gorilla	ENSGGOG00000022881	2 retrocopies	retro_ggor_1145, retro_ggor_1189,
Loxodonta africana	ENSLAFG00000008538	2 retrocopies	retro_lafr_529, retro_lafr_925,
Myotis lucifugus	ENSMLUG00000000043	3 retrocopies	retro_mluc_1707, retro_mluc_435, retro_mluc_611,
Macaca mulatta	ENSMMUG00000000056	1 retrocopy	retro_mmul_2135,
Monodelphis domestica	ENSMODG00000015075	1 retrocopy	retro_mdom_1786,
Nomascus leucogenys	ENSNLEG00000004069	1 retrocopy	retro_nleu_1714,
Oryctolagus cuniculus	ENSOCUG00000014956	1 retrocopy	retro_ocun_1778,
Otolemur garnettii	ENSOGAG00000005896	1 retrocopy	retro_ogar_3078,
Pongo abelii	ENSPPYG00000014053	2 retrocopies	retro_pabe_1241, retro_pabe_3784,
Pan troglodytes	ENSPTRG00000014707	1 retrocopy	retro_ptro_1052,
Tursiops truncatus	ENSTTRG00000016434	1 retrocopy	retro_ttru_1093,