RetrogeneDB ID: retro_ggor_2218

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:139010212..139013374(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000028336
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: KIF4A
• Ensembl ID: ENSGGOG00000006631
• Aliases: None
• Description: None

Sequence

>retro_ggor_2218
GATAGGATCATGAAGGAAGAGGTGAAGGGAATTCCTGTAAGAGTGGCACTGCGTTGTCGCCCTCTGGTCCCCAAAGAGAT
TAGCGAGGGCTGCCAGATGTGCCTTTCCTTCGTGCCCGGGGAGACTCAGGTGGTGGTTGGTACTGATAAATCCTTCACCT
ACGATTTTGTGTTTGACCCCTGTACTGAGCAGGAAGAAGTCTTCAATAAAGCAGTAGCGCCGCTCATAAAAGGCATATTT
AAAGGATATAATGCAACGGTCCTGGCCTATGGGCAGACTGGCTCTGGAAAAACCTATTCAATGGGAGGTGCATACACTGC
GGAGCAGGAGAATGAACCAACAGTCGGCATTATTCCTAGGGTAATACAACTGCTCTTCAAAGAAATTGATAAAAAGAGTG
ACTTTGAATTTACTCTGAAAGTGTCTTACTTAGAGATTTACAATGAAGAAATTTTGGATCTTCTATGCCCATCTCGTGAG
AAAGCTCAAATAAATATACGGGAGGATCCTAAAGAAGGCATAAAGATTGTGGGACTCACTGAGAAGACTGTTTTAGTTGC
CTTGGATACTGTTTCCTGTTTGGAGCAGGGCAACAACTCTAGGACTGTGGCCTCCACAGCTATGAACTCCCAGTCGTCCC
GATCTCATGCCATCTTTACAATCTCCATAGAGCAAAGAAAGAAAAGTGACAAGAATAGCAGCTTTCGCTCCAAGCTGCAT
CTTGTAGATCTCGCTGGATCAGAAAGACAGAAGAAAACCAAGGCTGAAGGGGATCGTCTAAAAGAGGGTATTAATATTAA
CCGAGGCCTCCTATGCTTGGGAAATGTAATCAGTGCTCTTGGAGATGACAAAAAGGGTAGCTTTGTGCCCTACAGAGATT
CCAAGTTAACTCGACTGCTGCAAGATTCTCTAGGAGGTAACAGCCACACTCTTATGATCGCCTGTGTGAGTCCTGCTGAC
TCCAATCTAGAGGAAACATTAAGTACCCTTCGCTATGCTGACAGAGCAAGAAAAATCAAGAACAGACCTATTGTTAATAT
TGATCCCCACACAGCTGAACTTAATCATCTAAAGCAACAGGTACAACAGCTACAAGTCTTGTTGCTACAAGCCCATGGAG
GTACCCTGCCTGGATCTATAAATGCGGAACCATCAGAGAATCTACGATCCCTGATGGAGAAGAATCAGTCCCTGGTAGAG
GAGAATGAAAAATTAAGTCGTTGTCTGAGCGAGGCAGCTGGTCAGACAGCCCAGATGTTGGAGAGGATCATTTTGACAGA
GCAAGTGAATGAAAAACTGAACGCCAAGCTAGAAGAGCTCACGCAGCATGTGGCCTGCAAGCTGGATCTTCAAAAGCTAG
TGGAGACTTTGGAAGACCAGGAATTGAAAGAAAATGTAGAGATAATTTGTAACCTGCAGCAACTGATTACCCAGTTATCA
GATGAAACTGTTGCTTGCATGACTGCAGCCATTGATACTGCGGTAGAACAAGAAGCTCACGTGGAAACCAGTCCAGAGAC
AAGCAGGTCTTCTGACGCTTTTACCACTCAGCATGCTCTCCATCAAGCTCAGATGTCTAAGGAGGTGGTTGAGTTGAATA
ACGCCCTTGCACTGAAAGAGGCCCTAGTTAGGAAGATGACTCAGAATGACAACCAACTACAGCCCATTCAGTTTCAATAC
CAGGATAACATAAAAAATCTAGAATTAGAAGTCATCAATCTGCAAAAGGAAAAGGAAGAATTGGTTCTTGAACTTCAGAC
AGCAAAGAAGGATGTCAACCAAGCCAAGCTAAGTGAGCACCGCCACAAACTTCTCCAGGAGCTGGAGTGTCAAATAGCTG
ATCTGAAGAAGAAACTGAATGAGCAGTCCAAACTTCTGAAACTAAAGGAATCCACAGAGCGTACTGTCTCCAAGCTGAAC
CAAGAGATATGGATGATGAAAAACCAGCGGGTACAGTTAATGCGTCAAATGAAAGAGGATGCTGAGAAGTTTAGACAGTG
GAAGCAGAAAAAAGACAAAGAAGTAATACAGTTAAAAGAACGAGACCGTAAGAGGCAATATGAGCTGCTCAAACTTGAAA
GAAACTTCCAGAAACAATCCAGTGTGCTCAGACGTAAAACGGAAGAGGCAGCAGCTGCCAACAAGCGTCTCAAGGATGCT
CTCCAGAAACAACGAGAGGTCACAGATAAGCGGAAAGAGACTCAGAGCCATGGAAAGGAAGGTATTGCAGCTCGAGTGAA
GAATTGGCTTGGAAATGAAATTGAGGTTATGGTCAGTACTGAGGAAGCCAAACGCCATCTGAATGACCTCCTTGAAGACA
GAAAGATCCTGGCTCAGGATGTGGTTCAACTCAAAGAAAAAAAGGAATCTCGGGAGAATCCACCTCCTAAACTCCGGAAG
TGTACATTCTCCCTTTCTGAGGTGCATGGTCAAGTTTTGGAGTCAGAAGATTGTATTACAAAACAGATTGAAAGCCTAGA
GACTGAAATGGAACTCAGGAGTGCTCAGATTGCTGACCTACAGCAGAAGCTGCTGGATGCAGAAAGTGAAGACAGGCCAA
AACAATGCTGGGAGAATATTGCCACCATTCTGGAAGCCAAGTGTGCCCTGAAATATTTGATTGGAGAGCTGGTCTCCTCC
AAAATACATGTCACCAAACTTGAAAACAGCCTGAGACAGAGCAAGGCCAGCTGTGCTGACATGCAGAAGATGCTATTTGA
GGAACAAAATCATTTTTCTGAGATAGAGACAGAGTTACAAGCTGAGCTGGTCAGAATGGAGCAACAGCACCAAGAGAAGG
TGCTATACCTTGTCAGCCAGCTGCAGCAAAGCCAAATGGCAGAGAAGCAGTTAGAGAAATCAGCCAGTGAAAAGGAACAA
CAGCTGGTGAGCACACTGCAGTGTCAGGATGAAGAACTTGAGAAGATGCGAGAAGTGTGTGAGCAAAATCAGCAGCTTCT
CCAAGAGAATGAAATCATCAAGCAGAAACTGATCCTCCTCCAGGTAGCCAGCAGACAGAAACATCTTCCTAATGATACCC
TTCTATCTCCAGACTCTTCTTTTGAATATATCCCACCTAAGCCAAAACCTTCTCGTGTTAAAGAAAAGTTTCTGGAGCAA
AGCATGGACATCGAGGATCTAAAATATTGTTCAGAGCATTCT

Alignment

ORF - retro_ggor_2218 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.26 %
• Parental protein coverage: 86.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DRIMKEEVKGIPVRVALRCRPLVPKEISEGCQMCLSFVPGEPQVVVGTDKSFTYDFVFDPSTEQEEVFNT
          DRIMKEEVKGIPVRVALRCRPLVPKEISEGCQMCLSFVPGE.QVVVGTDKSFTYDFVFDP.TEQEEVFN.
Retrocopy DRIMKEEVKGIPVRVALRCRPLVPKEISEGCQMCLSFVPGETQVVVGTDKSFTYDFVFDPCTEQEEVFNK

Parental  AVAPLIKGVFKGYNATVLAYGQTGSGKTYSMGGAYTAEQENEPTVGVIPRVIQLLFKEIDKKSDFEFTLK
          AVAPLIKG.FKGYNATVLAYGQTGSGKTYSMGGAYTAEQENEPTVG.IPRVIQLLFKEIDKKSDFEFTLK
Retrocopy AVAPLIKGIFKGYNATVLAYGQTGSGKTYSMGGAYTAEQENEPTVGIIPRVIQLLFKEIDKKSDFEFTLK

Parental  VSYLEIYNEEILDLLCPSREKAQINIREDPKEGIKIVGLTEKTVLVALDTVSCLEQGNNSRTVASTAMNS
          VSYLEIYNEEILDLLCPSREKAQINIREDPKEGIKIVGLTEKTVLVALDTVSCLEQGNNSRTVASTAMNS
Retrocopy VSYLEIYNEEILDLLCPSREKAQINIREDPKEGIKIVGLTEKTVLVALDTVSCLEQGNNSRTVASTAMNS

Parental  QSSRSHAIFTISLEQRKKSDKNSSFRSKLHLVDLAGSERQKKTKAEGDRLKEGININRGLLCLGNVISAL
          QSSRSHAIFTIS.EQRKKSDKNSSFRSKLHLVDLAGSERQKKTKAEGDRLKEGININRGLLCLGNVISAL
Retrocopy QSSRSHAIFTISIEQRKKSDKNSSFRSKLHLVDLAGSERQKKTKAEGDRLKEGININRGLLCLGNVISAL

Parental  GDDKKGGFVPYRDSKLTRLLQDSLGGNSHTLMIACVSPADSNLEETLNTLRYADRARKIKNKPIVNIDPQ
          GDDKKG.FVPYRDSKLTRLLQDSLGGNSHTLMIACVSPADSNLEETL.TLRYADRARKIKN.PIVNIDP.
Retrocopy GDDKKGSFVPYRDSKLTRLLQDSLGGNSHTLMIACVSPADSNLEETLSTLRYADRARKIKNRPIVNIDPH

Parental  TAELNHLKQQVQQLQVLLLQAHGGTLPGSITVEPSENLQSLMEKNQSLVEENEKLSRGLSEAAGQTAQML
          TAELNHLKQQVQQLQVLLLQAHGGTLPGSI..EPSENL.SLMEKNQSLVEENEKLSR.LSEAAGQTAQML
Retrocopy TAELNHLKQQVQQLQVLLLQAHGGTLPGSINAEPSENLRSLMEKNQSLVEENEKLSRCLSEAAGQTAQML

Parental  ERIILTEQANEKMNAKLEELRQHAACKLDLQKLVETLEDQELKENVEIICNLQQLITQLSDETVACMAAA
          ERIILTEQ.NEK.NAKLEEL.QH.ACKLDLQKLVETLEDQELKENVEIICNLQQLITQLSDETVACM.AA
Retrocopy ERIILTEQVNEKLNAKLEELTQHVACKLDLQKLVETLEDQELKENVEIICNLQQLITQLSDETVACMTAA

Parental  IDTAVEQEAQVETSPETSRSSDAFTTQHALRQAQMSKELVELNKALALKEALARKMTQNDSQLQPIQYQY
          IDTAVEQEA.VETSPETSRSSDAFTTQHAL.QAQMSKE.VELN.ALALKEAL.RKMTQND.QLQPIQ.QY
Retrocopy IDTAVEQEAHVETSPETSRSSDAFTTQHALHQAQMSKEVVELNNALALKEALVRKMTQNDNQLQPIQFQY

Parental  QDNIKELELEVINLQKEKEELVLELQTAKKDANQAKLSERRRKRLQELEGQIADLKKKLNEQSKLLKLKE
          QDNIK.LELEVINLQKEKEELVLELQTAKKD.NQAKLSE.R.K.LQELE.QIADLKKKLNEQSKLLKLKE
Retrocopy QDNIKNLELEVINLQKEKEELVLELQTAKKDVNQAKLSEHRHKLLQELECQIADLKKKLNEQSKLLKLKE

Parental  STERTVSKLNQEIRMMKNQRVQLMRQMKEDAEKFRQWKQKKDKEVIQLKERDRKRQYELLKLERNFQKQS
          STERTVSKLNQEI.MMKNQRVQLMRQMKEDAEKFRQWKQKKDKEVIQLKERDRKRQYELLKLERNFQKQS
Retrocopy STERTVSKLNQEIWMMKNQRVQLMRQMKEDAEKFRQWKQKKDKEVIQLKERDRKRQYELLKLERNFQKQS

Parental  NVLRRKTEEAAAANKRLKDALQKQREVADKRKETQSRGMEGTAARVKNWLGNEIEVMVSTEEAKRHLNDL
          .VLRRKTEEAAAANKRLKDALQKQREV.DKRKETQS.G.EG.AARVKNWLGNEIEVMVSTEEAKRHLNDL
Retrocopy SVLRRKTEEAAAANKRLKDALQKQREVTDKRKETQSHGKEGIAARVKNWLGNEIEVMVSTEEAKRHLNDL

Parental  LEDRKILAQDVAQLKEKKESGENPPPKLRRRTFSLTEVRGQVSESEDSITKQIESLETEMEFRSAQIADL
          LEDRKILAQDV.QLKEKKES.ENPPPKLR..TFSL.EV.GQV.ESED.ITKQIESLETEME.RSAQIADL
Retrocopy LEDRKILAQDVVQLKEKKESRENPPPKLRKCTFSLSEVHGQVLESEDCITKQIESLETEMELRSAQIADL

Parental  QQKLLDAESEDRPKQRWENIATILEAKCALKYLIGELVSSKIQVSKLESSLKQSKTSCADMQKMLFEERN
          QQKLLDAESEDRPKQ.WENIATILEAKCALKYLIGELVSSKI.V.KLE.SL.QSK.SCADMQKMLFEE.N
Retrocopy QQKLLDAESEDRPKQCWENIATILEAKCALKYLIGELVSSKIHVTKLENSLRQSKASCADMQKMLFEEQN

Parental  HFAEIETELQAELVRMEQQHQEKILQIRRNLKQRQMAEKQLEESVSEKEQQLLSTLKCQDEELEKMREVC
          HF.EIETELQAELVRMEQQHQEK.L.....L.Q.QMAEKQLE.S.SEKEQQL.STL.CQDEELEKMREVC
Retrocopy HFSEIETELQAELVRMEQQHQEKVLYLVSQLQQSQMAEKQLEKSASEKEQQLVSTLQCQDEELEKMREVC

Parental  EQNQQLLRENEIIKQKLTLLQVASRQKHLPKDTLLSPDSSFEYVPPKPKPSRVKEKFLEQSMDIEDLKYC
          EQNQQLL.ENEIIKQKL.LLQVASRQKHLP.DTLLSPDSSFEY.PPKPKPSRVKEKFLEQSMDIEDLKYC
Retrocopy EQNQQLLQENEIIKQKLILLQVASRQKHLPNDTLLSPDSSFEYIPPKPKPSRVKEKFLEQSMDIEDLKYC

Parental  SEHS
          SEHS
Retrocopy SEHS

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	0.29 RPM	0.72 RPM
SRP007412_cerebellum	0.55 RPM	0.20 RPM
SRP007412_heart	0.03 RPM	0.34 RPM
SRP007412_kidney	0.04 RPM	0.29 RPM
SRP007412_liver	0.08 RPM	0.47 RPM
SRP007412_testis	19.68 RPM	3.52 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_2218 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2218 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000015566	1 retrocopy	retro_cjac_2142,
Cavia porcellus	ENSCPOG00000000211	1 retrocopy	retro_cpor_681,
Homo sapiens	ENSG00000090889	1 retrocopy	retro_hsap_18,
Gorilla gorilla	ENSGGOG00000006631	1 retrocopy	retro_ggor_2218 ,
Myotis lucifugus	ENSMLUG00000011048	1 retrocopy	retro_mluc_114,
Mus musculus	ENSMUSG00000034311	1 retrocopy	retro_mmus_268,
Pongo abelii	ENSPPYG00000020438	1 retrocopy	retro_pabe_2700,
Rattus norvegicus	ENSRNOG00000038035	1 retrocopy	retro_rnor_2330,