RetrogeneDB ID: retro_ggor_1903

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:181553536..181554817(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RALBP1
• Ensembl ID: ENSGGOG00000023120
• Aliases: None
• Description: None

Sequence

>retro_ggor_1903
TGCGAAGGCATCTACAGAGTATCAGGAATTGAATCAAAGGTGGATGAGCTAAAAGCAGCCTATGACCGGAAGGAGTCTAC
CAACTTGGAAGAATATGAGCCTAACACTGTAGCCAGTTTGCTGAAACAGTATTTGTGAGACCTTCCAGAGCATTTGGTTA
CCAAAGAGCTTATGCCGAGATTTGAAGAAGCTTGTGGGAGGACCACGGAGACTGAGAAAGTGCAGGAATTCCAGCGTTTA
CTCAAAGAACTGCCAGAATGTAACTATCTTCTGATTTCTTGGCTCATTGTGCACATGGACCATGTCATTGCAAATGAACT
GGAAACAAAAATGAATAAACAGAACATTTCTATAGTGCTCAACCCAACTGTGCAGATCAGCAATTGAGTCCTGTATGTGT
TTTTCACACATGCGCAAGAACTCTTTGGAAATGTGGTACTAAAGCAAGTGACGAAACCTCTGCGATGGTCTAACATGGCC
ACGATGCCCACGCTGCCAGAGACCCAGGCGGGTATCAAGGAGGAGATCAGGAGACAGGGTTTTCTTTTGAATTGTTTACA
TCGATATCTGCAGTGTGGGATAAAGGATTTATCTAAAGAAGAAAGATTATGGAAAGTCCAAAGAATTTTGACAGCCCTCA
AAAGAAAACTGAGAGACGCTTAAAGACAGGAGTGTGAAACCAAGATTGCACAAAAGATAGCCAGTCTTTTAAAAGAGGAT
GTTTCCAAAGAAGAGATGAATGAAAATGAAGAAGTTATAAATATTCTCCTTGCTTGGGAGAATGAGATCCTGACTGAATA
GGAGGAGCTCCTGACCATGGAGCAGTTTCTACGCCGGCAGATTTCCTCAGAAAAAGAAGAGATGGGATGCCTCAGAGCCG
AGATTGCTGAAATTCAGAGTCACCAGCAGCACGGCCGAAGTGAGACTGAGGAGTACTCCTCCGAGAGCGAGAGTGAGGAT
GAGGAGGAGCTGCAGATTATTCTGGAATATTTACAGAGACAGAACGAAGAGCTGGAAATAAAGAACAATCATTTGAATCA
AGCAGTTCAAGAGGAGCGCGAGGTCATCATCGAGCTGCGCGTACAGTTCCGGCTGCTCCAGATGCAGGAAGCCAAGGCTG
AGCAGCAGGTGCAGGAGGACCAGGAGCCTGAGTGGCGCGGTGGTGCCGTCCAGTCGCCCAGAGACTGTGTCCTCAGGCCA
AAAGAAGCTAAAGAGCAGCCAAAGGCAGGCAAAGAGCCGGTGAAGCCATCACCCAGCAGGGACAGGAAGGAGACGTCCAT
C

Alignment

ORF - retro_ggor_1903 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.95 %
• Parental protein coverage: 69.98 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CEGIYRVSGIKSKVDELKAAYDREESTNLEDYEPNTVASLLKQYLRDLPENLLTKELMPRFEEACGRTTE
          CEGIYRVSGI.SKVDELKAAYDR.ESTNLE.YEPNTVASLLKQYL.DLPE.L.TKELMPRFEEACGRTTE
Retrocopy CEGIYRVSGIESKVDELKAAYDRKESTNLEEYEPNTVASLLKQYL*DLPEHLVTKELMPRFEEACGRTTE

Parental  TEKVQEFQRLLKELPECNYLLISWLIVHMDHVIAKELETKMNIQNISIVLSPTVQISNRVLYVFFTHVQE
          TEKVQEFQRLLKELPECNYLLISWLIVHMDHVIA.ELETKMN.QNISIVL.PTVQISN.VLYVFFTH.QE
Retrocopy TEKVQEFQRLLKELPECNYLLISWLIVHMDHVIANELETKMNKQNISIVLNPTVQISN*VLYVFFTHAQE

Parental  LFGNVVLKQVMKPLRWSNMATMPTLPETQAGIKEEIRRQEFLLNCLHRDLQGGIKDLSKEERLWEVQRIL
          LFGNVVLKQV.KPLRWSNMATMPTLPETQAGIKEEIRRQ.FLLNCLHR.LQ.GIKDLSKEERLW.VQRIL
Retrocopy LFGNVVLKQVTKPLRWSNMATMPTLPETQAGIKEEIRRQGFLLNCLHRYLQCGIKDLSKEERLWKVQRIL

Parental  TALKRKLREAKRQECETKIAQEIASLSKEDVSKEEMNENEEVINILLAQENEILTEQEELLAMEQFLRRQ
          TALKRKLR.A.RQECETKIAQ.IASL.KEDVSKEEMNENEEVINILLA.ENEILTE.EELL.MEQFLRRQ
Retrocopy TALKRKLRDA*RQECETKIAQKIASLLKEDVSKEEMNENEEVINILLAWENEILTE*EELLTMEQFLRRQ

Parental  IASEKEEIERLRAEIAEIQSRQQHGRSETEEYSSESESESEDEEELQIILEDLQRQNEELEIKNNHLNQA
          I.SEKEE...LRAEIAEIQS.QQHGRSETEEYS..SESESEDEEELQIILE.LQRQNEELEIKNNHLNQA
Retrocopy ISSEKEEMGCLRAEIAEIQSHQQHGRSETEEYS--SESESEDEEELQIILEYLQRQNEELEIKNNHLNQA

Parental  IHEEREAIIELRVQLRLLQMQRAKAEQQAQEDEEPEWRGGAVQPPRDGVLEPKAAKEQPKAGKEPAKPSP
          ..EERE.IIELRVQ.RLLQMQ.AKAEQQ.QED.EPEWRGGAVQ.PRD.VL................KPSP
Retrocopy VQEEREVIIELRVQFRLLQMQEAKAEQQVQEDQEPEWRGGAVQSPRDCVLXXXXXXXXXXXXXXXVKPSP

Parental  SRDRKETSI
          SRDRKETSI
Retrocopy SRDRKETSI

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	1.44 RPM	92.02 RPM
SRP007412_cerebellum	0.75 RPM	65.79 RPM
SRP007412_heart	0.31 RPM	21.98 RPM
SRP007412_kidney	0.57 RPM	61.25 RPM
SRP007412_liver	0.13 RPM	26.54 RPM
SRP007412_testis	0.62 RPM	59.47 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_1903 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1903 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2734
Pan troglodytes	retro_ptro_1848
Pongo abelii	retro_pabe_2273
Macaca mulatta	retro_mmul_1528

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000017797	2 retrocopies	retro_hsap_2129, retro_hsap_2734,
Gorilla gorilla	ENSGGOG00000023120	1 retrocopy	retro_ggor_1903 ,
Macaca mulatta	ENSMMUG00000019521	2 retrocopies	retro_mmul_1000, retro_mmul_1528,
Nomascus leucogenys	ENSNLEG00000006950	1 retrocopy	retro_nleu_2532,
Pongo abelii	ENSPPYG00000009010	2 retrocopies	retro_pabe_1922, retro_pabe_2273,
Pan troglodytes	ENSPTRG00000009859	2 retrocopies	retro_ptro_1558, retro_ptro_1848,