RetrogeneDB ID: retro_ecab_947

Retrocopy location

• Organism: Horse (Equus caballus)
• Coordinates: 7:7813147..7817743(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSECAG00000021004
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CAMSAP1
• Ensembl ID: ENSECAG00000017095
• Aliases: None
• Description: calmodulin regulated spectrin-associated protein 1 [Source:HGNC Symbol;Acc:19946]

Sequence

>retro_ecab_947
GATAACATCCCCGAGGACCTCAGGGACCCCTTTTACATCGACCAGTATGAGCAGGAGCACATCAAGCCGCTTGTCATCAA
GCTCCTGCTGTCCAGCGAGTTGTACTGCCGTGTCTGCAGCCTCATCCTGAAAGGTGACCAGGTGGCCTCCTTACAGGGAC
ATCAGTCTGTCATCCAGGCCCTGTCCCGGAAAGGGATTTACGTGATGGAGAGCGATGACACCCCCGTGACGGACCCCGAC
CTCAGCCGCGCACCAATAAAGATGAGTGCCCATATGGCGATGGTGGACGCCCTCATGATGGCCTACACCGTGGAGATGAT
CAGCATCAAGAAGGTCGTGGCCAGCGTCAAGCGCTTCTCGACATTCAGTGCCTCGAAGGAGCTTCCCTATGACCTCGAGG
ATGCCATGGTGTTCTGGGTCAACAAGGTAAATCTTAAAATGAGAGAGATAACAGAGAAAGAAGTGAAGTTAAAACAACAG
TTGTTGGAAAGTCCAGCCCATCATCAAAAGGTGCACTATCGCCGAGAGCACCTGTCTGCGAGGCAGCCGCCCTACTTCCC
GTTGTTGGAGGACCTGATGAGAGACAGCAGCGATGGGGCTGCTCTCTCGGCTGTGGTCCACTACTACTGCCCAGAGCAGA
TGAAGCTGGATGATATATGCTTGAACGAGGTAACATCGATGGCTGACAGTCTGTATAATATTCGGCTTCTGAGAGAATTC
TCAAATGAGTATCTTAACAAATGCTTTTATCTCACCTTAGAAGATATGCTGTATGCGCCCTTAGTGTTGAAACCCAATGT
TATGGTTTTTATTGCTGAACTCTTCCGGTGGTTTGAGAATGTCAAACCAGATTTTGTTCAACCCACGGATGTTCAGGAAC
TGAAAGATGCTAAAACAGTGTCACACCAAAAAAGCAGTCGGCCTCCTGTTCCTATCTCCAATGCCACCAAGCACAGCTTC
CTGGGGAGCCCCGCAGCAGCAAGCCTGGTTGATCTGCAGCCCCCCACCCAGCCGCCAGCCGAGGGTTGTCACAGGCACCA
CCTGCACCCCGAAGAGTCTGAACATCTGGGGAAAGGGGCCTCTGCCTTTAGCCCATCACATCCTTTATTGCCACTGAGAC
AGAAACAGCAAAAGACGATGCAGGGAGAGGAGTCCCCCAATGAGCAACACCGATGTAATTCTTTAACGCGAGTTGATGGT
CAGCCACCAGGTGCAGCAGCAGCGTGCCCAGAGAAGAAGAACAGGCCTGTGTTTCAGCCAGCACCCTTTGCTCTTCATCA
TGCTGCGAGCTGCGATCTGGACCCTGGCTCTGGTGACAGCGTCAGCTTGGCCCGCCCCATCAGCAAGGATAGTTTGGCAT
CCAATATCGTTAATCTGACCCCACAGAACCAGCCGCACCCCACAACCCTAAAGACCAATGGGAAAAGCCTCCTGAACAAT
GTCGATATTGAGGATGAGGATGAAGAGCTTGTGGCCATCATTAGAATGGATGTGGCTCCCCACAGCGGTGAGCTGGGCCT
GATGGCAAGTGCCCGATCTCCCCAGAGACTGGCGGACACCTTAGAAAGTAAGCCTGACAGTTTCTTCTTGGAGCCGTTGA
TGCCAGTCGTGCTTAGGCCAGCTAAAGAGAAGCAGATGATTACCAAGGAGGATGAGTGTGGAGAAGGGCAGCTAAGGAGC
TTCGCCTCCAAGAAGTCCAGCGAGGGCCACAAGCCTCTGCTGTGGAAGAAGGCATCCAGCGGTCATGTCAGTGGAGACTT
GAATAAGACTTTCACTCCCATCTGTTCAGAACTTCCTGTGGGTTTGGACCCTGTGCCTGCTGAGGCAGGGCCGCAGGTGG
TGGGGGAAGCCTGTGGTAGGCCTCTGGCCAGTGGCGGTTTTGATCCATTATCTCAGGGACAGTCTGCCGGCGGCTTCTTT
CTTCATGTAGCCAGAGCCAATGAATACATGGAGGGCAGGTTCTATGTTAGCTGTGCAAAAAGTCCCAACGCCCACGATCC
AGAGCCATGGACTGTCCTGAGGCAGGACTCCGACTCGGACATTGCAGATCTAGAGGAAGCTGAGCACGATTTACTTGGTG
AGGACCACCCTGTGGTGATCACTAAGTATGTCGGTGAGGAGGAGTCAGCAAAGCTGCACGAGGATCTGAAAGTGAAAGAT
CATGAGGACAAGGATGACGCCAGTGGCCGCTCGAGCCCATGTCTGAGCACCGTCTCTCAGATCAGCAGCGTCTCCATGGC
GAGCGGGAGCGTGAAGATGACCAGCTTCGCGGAAAGGAAGCTCCAGAGGCTCAACAGCTGTGAGACCAAGTCCAGCACCA
GCAGCTCCCAGAAGACCACGCCCGATGGCTCAGAGAGCTGCCCGCCCCCACTGACGACCTGGAAGCAAAGGAGAGAGCAG
AGTCCGAGCAGGCAGAGCAAGGATCACGTCAGCCTCCTGGCGTCCGAACTGGTGCAGCTCCACATGCAGCTGGAGGAGAA
ACGGAGAGCCATCGAAGCGCAGAAGAAGAAGATGGAGACTCTGTCCGCCAGGCAGCGACTGAAGCTGGGGAAGGCAGCCT
TCCTGCACGTGGTCAAGAAAGGCAACGCTGATGTCGTCCCCCAGCCGCTTAAACCAGAACACTTCGCTAGAGAGTATTCT
CAGCACAACGGAGAGGACTTTGATGGTGGCGTTTCCAAGATGGAAGAATTTTTTGTTAAGGAACAAAGGAGAGAGGATCT
CCTTAGTGAGTCTCAAGACGTGGAGAGGGAAAGCCTGGCTTTCATTCAGCAGCATAAACTGAAAGACCCTGCCACTCTCC
ACGACCTGGAGAAGCACAAAGCGCTCTCTGCTGCTCTCCTGGAAGACGGCGCTGGGGAGGTGGGGGACGTGAGCGAGTGC
GACCTTTCTACTGAGAAACTTAACGAGACCATCAGCACACTGCAGCAGGCGATTCTGAAGATTTCTCAGCAGCAAGAGCA
GCTGCTTATGAAATCCCCCACAGCACCAGCTCCACATTCTAAGAACTCCCAGGACCAGAGAGTCAAAGCAGCCATCCACT
TCGTTGAGCCACTCTCTCCCACTGGAGTGACGGGTCACCGCAAACCCCCTCGTCTTGGTCAGGGTCGGAATTCCCGTTCA
GGAAGACAGGCTGACCTGAAGGTCCCGAAAGACAGACAGCAGGGTTCCTCCCGGAGCAAGACCCCGACGCCCAGTATAGA
GATTCTCCCCTACTTACGGTCCTTCCCTCCTCGGACGCCCTCTGACCCGGGCTGGGACTGTGGTGCAGACCCAGGGAGTG
ACCCTCATGAGAAGTGCTTCTTCGACAGTTACAGGCTCCATGATGAGAGCAATCAGCAGACATTTGTCTTGTCCTCCTCC
AAAGATGCAAACACTATATTGGAACAAACGAGCCTCAAAGAGGCTCTGGACGGCAGCGAGAAGGAGGCGGGGCTCAGCGC
CCCGGCTGGCTCCGGCAAGGAGAACGGGCCTGTGGACGAGCCCCCGAGGAGCAAGGCCAGCCTCATCGAGGTGGACCTCT
CAGACCTGAAGGCCCCTGACGAGGACGGAGAGAGGGAAGGCCACGAGAGCTCTGTGGACCTCAGCACTGACGGCGATCAG
AAGCCGGAAGTCGTCGTCTTCTTTAAGGATGAACAGAAGGCGGAAGATGAGCTCGCCAGGAAGCGGGCGGCCTTCCTCCT
GAAGCAGCAGCTGGAAATAGAAGTAGAGCTCAAGAGAGACGAGGCCAGGCGTAAAGCCGAAGAAGATCGGATACGGAAGG
AGGAAGAGAAGGCGCGATCAGAGCTCATCAAACAGGAATACTCGCGGAGGAAGCAGCAACAGATGTTAGAAGAACAAGGA
CTGGGAAAACCTAAATCGAAGCCAAAAAAGCCGCGGCCAAAGTCAGTCCATCGGGAAGAGTCGTGTAGCGACTCGGGAAC
CAAGTGCTCCTCAACCCCTGATAACCTGAGCCGGGCCCAGTCGGGCTCCAACCTGTCCTTGGGCTCCGGCCTGTCCTTGG
CCTCCGCAGCAACGACTGAGCCCGAGAGCATTCATTCAGGGGGCACGCCTTCCCAGCGCAGAGTCGAGTCCCTGGAAATC
CTGCCCGTATTAAGGCGCAACCCGAGCAGAAGCACAGACAGAGACTGGGAGACGGCGTCTGCAGCGTCCTCCCTCGCCTC
GGTGGCCGAGTACACAGGTCCCAAGCTCTTTAAGGAGCCCAGTAACAAATCCAACAAACCGATCGTTCATAATGCTGCGT
CCAATTGCTGTCTGGCTGGAAAAGTGAATGAACCTCACAAGAATTCAGTATTAGAGGAGCTAGAGAAGTGTGACACCAAT
CACTACATCATACTGTTTCGTGATGCCGGCTGCCAGTTCGGGGCACTTTACTGGTGCTATCCAGACACTGAGGAAATCTA
CAAATTAACTGGAATGGGGCCAAAGAGCATTACCAAGAAAATGATCGACAAACTGTATAAATACAGCTCAGACCGGAAAC
AGTTTAACCTGATCCCAGCCAAAACCATGTCCGTCAGTGTGGATGCTCTCACTATCCACAACCACCTGTGGCAGCCCAAG
TGGCCTGCAGCACCAAAGAAGACCCAGACTCATAAA

Alignment

ORF - retro_ecab_947 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.26 %
• Parental protein coverage: 99.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DNIPEDLRDPFYIDQYEQEHIKPPVIKLLLSSELYCRVCSLILKGDQVAALQGHQSVIQALSRKGIYVME
          DNIPEDLRDPFYIDQYEQEHIKP.VIKLLLSSELYCRVCSLILKGDQVA.LQGHQSVIQALSRKGIYVME
Retrocopy DNIPEDLRDPFYIDQYEQEHIKPLVIKLLLSSELYCRVCSLILKGDQVASLQGHQSVIQALSRKGIYVME

Parental  SDDTPVTDPDLSRAPIKMSAHMAMVDALMMAYTVEMISIEKVVASVKRFSTFSASKELPYDLEDAMVFWV
          SDDTPVTDPDLSRAPIKMSAHMAMVDALMMAYTVEMISI.KVVASVKRFSTFSASKELPYDLEDAMVFWV
Retrocopy SDDTPVTDPDLSRAPIKMSAHMAMVDALMMAYTVEMISIKKVVASVKRFSTFSASKELPYDLEDAMVFWV

Parental  NKVNLKMREITEKEVKLKQQLLESPAR-QKVRYRREHLSARQPPCFPLLEDLMRDSSDGAALLAVVHFYC
          NKVNLKMREITEKEVKLKQQLLESPA..QKV.YRREHLSARQPP.FPLLEDLMRDSSDGAAL.AVVH.YC
Retrocopy NKVNLKMREITEKEVKLKQQLLESPAHHQKVHYRREHLSARQPPYFPLLEDLMRDSSDGAALSAVVHYYC

Parental  PEQMKLDDICLKEVTSMADSLYNIRLLREFSNEYLNKCFYLTLEDMLYAPLVLKPNVMVFIAELFWWFEN
          PEQMKLDDICL.EVTSMADSLYNIRLLREFSNEYLNKCFYLTLEDMLYAPLVLKPNVMVFIAELF.WFEN
Retrocopy PEQMKLDDICLNEVTSMADSLYNIRLLREFSNEYLNKCFYLTLEDMLYAPLVLKPNVMVFIAELFRWFEN

Parental  VKPDFVQPRDVQELKDAKTVSHQKSSRPPVPISNATKRSFLGSPAAASPADLQSSTQLPAEGCPRHHLHP
          VKPDFVQP.DVQELKDAKTVSHQKSSRPPVPISNATK.SFLGSPAAAS..DLQ..TQ.PAEGC.RHHLHP
Retrocopy VKPDFVQPTDVQELKDAKTVSHQKSSRPPVPISNATKHSFLGSPAAASLVDLQPPTQPPAEGCHRHHLHP

Parental  EESEHLGKGASAFSPSHPLLPLRQKQQKTMQGEECPDQRHRSNSLTRVDGQPRGAAAAWAEKKNRPVSQP
          EESEHLGKGASAFSPSHPLLPLRQKQQKTMQGEE.P...HR.NSLTRVDGQP.GAAAA..EKKNRPV.QP
Retrocopy EESEHLGKGASAFSPSHPLLPLRQKQQKTMQGEESPNEQHRCNSLTRVDGQPPGAAAACPEKKNRPVFQP

Parental  APVALHHAASCDLDPGSGDSVSLARSISKDSLASNIVNLTPQNQPHPTALKTNGKSLLNNVDIEDEDEEL
          AP.ALHHAASCDLDPGSGDSVSLAR.ISKDSLASNIVNLTPQNQPHPT.LKTNGKSLLNNVDIEDEDEEL
Retrocopy APFALHHAASCDLDPGSGDSVSLARPISKDSLASNIVNLTPQNQPHPTTLKTNGKSLLNNVDIEDEDEEL

Parental  VAIIRTDVAPHSGDLGLMASARSPQRLADTLESKPDSFFLEPLMPAVLRPAKEKQMITKEDECGEGRPRS
          VAIIR.DVAPHSG.LGLMASARSPQRLADTLESKPDSFFLEPLMP.VLRPAKEKQMITKEDECGEG..RS
Retrocopy VAIIRMDVAPHSGELGLMASARSPQRLADTLESKPDSFFLEPLMPVVLRPAKEKQMITKEDECGEGQLRS

Parental  FTSKRSSEGYQPLLRKKASSGHVSRDLNRTFTPICSELPVGLDPVPAEAGPQVVGEACGRPLASGGFDPL
          F.SK.SSEG..PLL.KKASSGHVS.DLN.TFTPICSELPVGLDPVPAEAGPQVVGEACGRPLASGGFDPL
Retrocopy FASKKSSEGHKPLLWKKASSGHVSGDLNKTFTPICSELPVGLDPVPAEAGPQVVGEACGRPLASGGFDPL

Parental  SQGQSADGFFLHVARAEEDTEGRFYVSCAKSPNAHHPEPWTVLRQDSDSDIADLEEAEHDLLGEDHPVVI
          SQGQSA.GFFLHVARA.E..EGRFYVSCAKSPNAH.PEPWTVLRQDSDSDIADLEEAEHDLLGEDHPVVI
Retrocopy SQGQSAGGFFLHVARANEYMEGRFYVSCAKSPNAHDPEPWTVLRQDSDSDIADLEEAEHDLLGEDHPVVI

Parental  TKYVGEEESAKLQEDLKVKEHEDKDDASGRSSPCLSTVSQISSVSMASGSVKMTSFAERKLQRLNSCETK
          TKYVGEEESAKL.EDLKVK.HEDKDDASGRSSPCLSTVSQISSVSMASGSVKMTSFAERKLQRLNSCETK
Retrocopy TKYVGEEESAKLHEDLKVKDHEDKDDASGRSSPCLSTVSQISSVSMASGSVKMTSFAERKLQRLNSCETK

Parental  SSTSSSQKTTPDGSESCPPPLTTWKQRREQSPSRQSKDHASLLASELVQLHMQLEEKRRAIEAQKKKMET
          SSTSSSQKTTPDGSESCPPPLTTWKQRREQSPSRQSKDH.SLLASELVQLHMQLEEKRRAIEAQKKKMET
Retrocopy SSTSSSQKTTPDGSESCPPPLTTWKQRREQSPSRQSKDHVSLLASELVQLHMQLEEKRRAIEAQKKKMET

Parental  LSARQRLKLGKAAFLHVVKKGKADVVPQPLKPEHFAREYSQHNGEDFDGGVSKMEEFLVKEEGREDLLSE
          LSARQRLKLGKAAFLHVVKKG.ADVVPQPLKPEHFAREYSQHNGEDFDGGVSKMEEF.VKE..REDLLSE
Retrocopy LSARQRLKLGKAAFLHVVKKGNADVVPQPLKPEHFAREYSQHNGEDFDGGVSKMEEFFVKEQRREDLLSE

Parental  SQDVDRESLAFIQQHKPKDPATLHDLEKHKALSAALLEDSAGEVGDVSECDLSIEKLNETISTLQQAILK
          SQDV.RESLAFIQQHK.KDPATLHDLEKHKALSAALLED.AGEVGDVSECDLS.EKLNETISTLQQAILK
Retrocopy SQDVERESLAFIQQHKLKDPATLHDLEKHKALSAALLEDGAGEVGDVSECDLSTEKLNETISTLQQAILK

Parental  ISQQQEQLLMKSPTAPAPGSKNNSQDQRVKTAIHFVEPLSPTGVTGHRKPPRLGQGRNSRSGRPADLKVP
          ISQQQEQLLMKSPTAPAP.SK.NSQDQRVK.AIHFVEPLSPTGVTGHRKPPRLGQGRNSRSGR.ADLKVP
Retrocopy ISQQQEQLLMKSPTAPAPHSK-NSQDQRVKAAIHFVEPLSPTGVTGHRKPPRLGQGRNSRSGRQADLKVP

Parental  KDRQQGSSRSKTPTPSIETLPHLRSFPPRTPSDPGWDGGADPGSDPQEKCFFDSYRLHDESNQRTFVLSS
          KDRQQGSSRSKTPTPSIE.LP.LRSFPPRTPSDPGWD.GADPGSDP.EKCFFDSYRLHDESNQ.TFVLSS
Retrocopy KDRQQGSSRSKTPTPSIEILPYLRSFPPRTPSDPGWDCGADPGSDPHEKCFFDSYRLHDESNQQTFVLSS

Parental  SKDANIILEQTSLKEALDGGEKEAGLSAPAGSGKENGPVDEPPRSKASLIEVDLSDLKAPDEDGETEGHE
          SKDAN.ILEQTSLKEALDG.EKEAGLSAPAGSGKENGPVDEPPRSKASLIEVDLSDLKAPDEDGE.EGHE
Retrocopy SKDANTILEQTSLKEALDGSEKEAGLSAPAGSGKENGPVDEPPRSKASLIEVDLSDLKAPDEDGEREGHE

Parental  SSVDLSTDGDQKPGVGFFFKDEQKAEDELAKKRAAFLLKQQRKAEEARVRKQQLEAEVELKRDEARRKAE
          SSVDLSTDGDQKP.V..FFKDEQKAEDELA.KRAAFLLKQQ...E...V.....EA......D..R...E
Retrocopy SSVDLSTDGDQKPEVVVFFKDEQKAEDELARKRAAFLLKQQLEIE---VELKRDEARRKAEEDRIRK--E

Parental  EDRIRKEEEKARRELIKQEYLRRKQQQILEEQGLGKPKSKPKKPRPKSVHREESCSDSGTKCSSTPDNLS
          E...R.E..K......KQ......Q..........KP..K..............CS......S.......
Retrocopy EEKARSELIKQEYSRRKQQQMLEEQGLGKPKSKPKKPRPKSVHREESCSDSGTKCSSTPDNLSRAQXXXX

Parental  RAQSGSSLSLASAATTEPESVHSGGTPSQRVESLEALPVLSRNPSRSTDRDWETASAASSLASVAEYTGP
          ............A.T........G.....RVESLE.LPVL.RNPSRSTDRDWETASAASSLASVAEYTGP
Retrocopy XXXXXXXXXXXXATTEPESIHSGGTPSQRRVESLEILPVLRRNPSRSTDRDWETASAASSLASVAEYTGP

Parental  KLFKEPSSKSNKPIIHNAVSHCCLAGKVNEPHKNSILEAREKCDANHYIILFRDAGCQFRALYCYYPDTE
          KLFKEPS.KSNKPI.HNA.S.CCLAGKVNEPHKNS.LE..EKCD.NHYIILFRDAGCQF.ALY..YPDTE
Retrocopy KLFKEPSNKSNKPIVHNAASNCCLAGKVNEPHKNSVLEELEKCDTNHYIILFRDAGCQFGALYWCYPDTE

Parental  EIYKLTGTGPKSITKKMIDKLYKYSSDRKQFNLIPAKTMSVSVDALTIHNHLWQPKRPAAPKKTQTRK
          EIYKLTG.GPKSITKKMIDKLYKYSSDRKQFNLIPAKTMSVSVDALTIHNHLWQPK.PAAPKKTQT.K
Retrocopy EIYKLTGMGPKSITKKMIDKLYKYSSDRKQFNLIPAKTMSVSVDALTIHNHLWQPKWPAAPKKTQTHK

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
SRP021940_articular_cartilage	0.24 RPM	11.92 RPM
SRP021940_cerebellum	1.56 RPM	102.41 RPM
SRP021940_embryo	3.15 RPM	138.55 RPM
SRP021940_placental_villous	0.53 RPM	29.97 RPM
SRP021940_synovial_membrane	1.04 RPM	35.19 RPM
SRP021940_testis	9.21 RPM	336.28 RPM

ChIP-Seq

Equus caballus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ecab_947 retrocopy.

TSS

Equus caballus was not studied using FANTOM5 data.

Lab

retro_ecab_947 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ecab_947 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000017095	1 retrocopy	retro_ecab_947 ,