RetrogeneDB ID: retro_ggor_1485

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 19:39817746..39818428(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: ZFAND5
• Ensembl ID: ENSGGOG00000008957
• Aliases: None
• Description: None

Sequence

>retro_ggor_1485
TTGGCCATGGGGATGGTTGGAACTCAGACCTGGCAGAAAAATATGGCTCAGGAGACTAACCAGACCCCGGGGCCCATGCT
GTGTAGCACAGGATGTGGCTTTTATGGAAATCCTAGGACAAATGGAATGTGTTCAGTTTGCTACAAAGAACATCTTCAGA
GGCAGCAGAATAGTGGCAGAATGAGCCCAATGGGGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTA
CAGAGAGCAGACACTAGCTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAGAAATGTGCCTGCGGC
TGCCTTGCCTGTAACTCAGCAAATGACAGAAATGAGCATTTCAACAGAGGACAAAATAACTACCCCGAAAACAGAGGTGT
GAGAGCCAGTTGTCACTCAGCCCAGTCCATCAGTTTTTCAGCCCAGTACTTCTCAGAGTGAAGAAAAAGCTCCTGAATTG
CCCAAACCAAAGAAAAACAGATGTTTCATGTGCAGAAAGAAAGTTGGTCTTACAGGGTTTGACTGCCGATGTGGAAATTT
GTTTTGTGGACTTCACCGTTAACTCTGACAAGCACAACTGTCCATATGATTACAAAGCAGAAGCTGCAGCAAAAATCAGA
AAAGAGAATCCAGTTGTTGTGGCTGAAAAAATTCAGAGAATA

Alignment

ORF - retro_ggor_1485 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.45 %
• Parental protein coverage: 86.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LAPGVPGSLHSTQKNMAQETNQTPGPMLCSTGCGFYGNPRTNGMCSVCYKEHLQRQQNSGRMSPMGTASG
          LA.G..G.....QKNMAQETNQTPGPMLCSTGCGFYGNPRTNGMCSVCYKEHLQRQQNSGRMSPMGTASG
Retrocopy LAMGMVGT-QTWQKNMAQETNQTPGPMLCSTGCGFYGNPRTNGMCSVCYKEHLQRQQNSGRMSPMGTASG

Parental  SNSPTSDSASVQRADTSLSNCEGAAGSTSEKSRNVPVAALPVTQQMTEMSISREDKITTPKTEVSEPVVT
          SNSPTSDSASVQRADTSL.NCEGAAGSTSEKSRNVP.AALPVTQQMTEMSIS.EDKITTPKTEV.EPVVT
Retrocopy SNSPTSDSASVQRADTSLNNCEGAAGSTSEKSRNVPAAALPVTQQMTEMSISTEDKITTPKTEV*EPVVT

Parental  QPSPSVSQPSTSQSEEKAPELPKPKKNRCFMCRKKVGLTGFDCRCGNLFCGLHR-YSDKHNCPYDYKAEA
          QPSPSV.QPSTSQSEEKAPELPKPKKNRCFMCRKKVGLTGFDCRCGNLFCGLHR..SDKHNCPYDYKAEA
Retrocopy QPSPSVFQPSTSQSEEKAPELPKPKKNRCFMCRKKVGLTGFDCRCGNLFCGLHR>NSDKHNCPYDYKAEA

Parental  AAKIRKENPVVVAEKIQRI
          AAKIRKENPVVVAEKIQRI
Retrocopy AAKIRKENPVVVAEKIQRI

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
SRP007412_brain_prefrontal_cortex	0.14 RPM	96.82 RPM
SRP007412_cerebellum	0.08 RPM	102.79 RPM
SRP007412_heart	0.09 RPM	19.76 RPM
SRP007412_kidney	0.16 RPM	79.77 RPM
SRP007412_liver	0.11 RPM	100.34 RPM
SRP007412_testis	0.52 RPM	112.20 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_1485 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1485 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2063
Pan troglodytes	retro_ptro_1375
Pongo abelii	retro_pabe_1676

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002366	2 retrocopies	retro_chof_1050, retro_chof_1846,
Cavia porcellus	ENSCPOG00000005076	2 retrocopies	retro_cpor_1398, retro_cpor_774,
Felis catus	ENSFCAG00000027317	1 retrocopy	retro_fcat_641,
Homo sapiens	ENSG00000107372	1 retrocopy	retro_hsap_2063,
Gorilla gorilla	ENSGGOG00000008957	1 retrocopy	retro_ggor_1485 ,
Gorilla gorilla	ENSGGOG00000015621	1 retrocopy	retro_ggor_2790,
Myotis lucifugus	ENSMLUG00000007173	2 retrocopies	retro_mluc_1233, retro_mluc_1993,
Monodelphis domestica	ENSMODG00000004426	1 retrocopy	retro_mdom_1910,
Mustela putorius furo	ENSMPUG00000008951	1 retrocopy	retro_mputfur_143,
Mus musculus	ENSMUSG00000024750	1 retrocopy	retro_mmus_1176,
Oryctolagus cuniculus	ENSOCUG00000000795	1 retrocopy	retro_ocun_1546,
Procavia capensis	ENSPCAG00000007436	1 retrocopy	retro_pcap_112,
Pongo abelii	ENSPPYG00000019290	1 retrocopy	retro_pabe_1676,
Vicugna pacos	ENSVPAG00000000700	1 retrocopy	retro_vpac_23,