RetrogeneDB ID: retro_fcat_38

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: X:103863502..103865521(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000026303
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000004095
• Aliases: None
• Description: None

Sequence

>retro_fcat_38
ATGAGATCTATTAGATCTTTTGCCAATGATGATCGCCATGTAATGGTGAAACATTCAACAATCTATCCATCTCCAGAGGA
ACTTGAAGCTGTTCAGAATATGGTGTCTACTGTTGAATGTGCTCTTAAACATGTCTCAGATTGGCTTGATGAAACAAATA
AAGGCACAAAAGCAGAGGGTGAGACAGAAGTGAAGAAGGATGAGGCCGTAGACACCTATTCCAAGGATCAAGGTGGTCGG
ACATTGTGTGGTGTAATGAGGATTGGCCTGGTTGCAAAAGGCTTGCTGATTAAAGATGATATGGACTTGGAGCTGGTTTT
AATGTGCAAAGACAAACCCACAGAGACCCTGTTAAATACAGTCAAAGATAATCTTCCTATTCAGATTCAGAAACTCACAG
AAGAGAAATATGAAGTGGAACAATGTGTAGATGAGGCTTCTATTATAATTCGGAATACAAAAGAGCCCACGCTAACTTTG
AAGGTGATACTTACTTCCCCGCTAATTAGGGACGAATTGGAGAAGAAGGATGGAGAAAAGGTTGCGATGAAAGATCCTCC
GGACTTACTGGACAGGCAGAAATGCCTGGACGCCTTGGCGTCTCTTCGACATGCCAAATGGTTTCAGGCAAGGGCAAACG
GATTAAAATCATGTGTAATTGTCCTCCGCATTCTGCGTGATTTGTGCAACAGAGTTCCCACATGGGCACCATTAAAAGGA
TGGCCACTAGAGCTTATATGTGAAAAGTCTACAGGTACTTGTAATAGACCTTTGGGCGCTGGGGAGGCCTTGAGACGAGT
AATGGAGTGTTTGGCATCTGGAATACTACTTCCTGGTGGTCCTGGTCTTCATGATCCTTGTGAGCGAGACCCAACAGATG
CTTTGAGCTATATGACCATCCAGCAAAAGGAAGATATTACCCACAGTGCACAGCATGCACTCAGACTATCAGCCTTTGGC
CAGATTTATAAAGTGCTGGAGATGGACCCCCTTCCATCTAGTAAACCTTTTCAGAAATATTCCTGGTCAGTTACTGATAA
AGAAGGTGCTGGGTCTTCAGCTCTGAAGAGGCCATTTGAAGATGGATTAGGGGATGATAAAGATCCCAATAAGAAGATGA
AACGAAACTTAAGGAAAATTCTGGATAGTAAAGCAATAGACCTTATGAATGCACTAATGAGGCTAAATCAGATCAGGCCT
GGGCTTCAGTATAAGCTCTTATCTCAGTCTGGCCCTGTCCATGCCCCAGTCTTCACAATGTCTGTAGATGTGGATGGTAC
AACGTATGAAGCCTCAGGGCCATCCAAGAAAACAGCAAAACTTCATGTAGCAGTGAAGGTATTACAAGCAATGGGATACC
CAACGGGCTTTGATGCAGATATTGAATGTATGAGTTCCGATGAAAAGTCAGACAATGAAGGCAAAAATGAAACAGTGTCT
TCAAACTCAAGCAATAATACTGGAAATTCTACAACTGAAACCTCCAGTACCTTAGAGGTAAGAACTCAGGGCCCTATCCT
CACAGCAAGTGGCAAAAATCCTGTAATGGAGCTCAATGAAAAAAGAAGAGGTCTTAAGTATGAACTCATCTCGGAGACTG
GTGGAAGCCATGACAAACGCTTTGTAATGGAGGTAGAAGTAGATGGACAGAAATTCAGAGGTGCAGGTCCAAATAAGAAA
GTGGCAAAGGCAAGTGCAGCTTTAGCTGCCCTGGAGAAGCTGTTTTCTGGACCCAATGCAGCAAATAATAAGAAAAAGAA
GATTATCCCTCAGGCAAAGGGTGTTGTGAATACAGCTGTGTCTGCAGCGGTCCAAGCTGTTCGGGGCAGAGGAAGAGGAA
CTCTAACGAGGGGAGCTTTTGTTGGGGCTACAGCTGCTCCTGGCTACATAGCTCCAGGCTACGGAGCACCGTATGGTTAC
AGCACCGCTGCCCCTGCCTATGGTTTACCCAAGAGAATGGTTCTGTTACCCGTTATGAAATTCCCAACATACCCTGTTCC
CCACTACTCATTCTTTTAG

Alignment

ORF - retro_fcat_38 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.96 %
• Parental protein coverage: 99.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RSIRSFANDDRHVMVKHSTIYPSPEELEAVQNMVSTVECALKHVSDWLDETNKGTKAEGETEVKKDEAVD
          RSIRSFANDDRHVMVKHSTIYPSPEELEAVQNMVSTVECALKHVSDWLDETNKGTKAEGETEVKKDEAVD
Retrocopy RSIRSFANDDRHVMVKHSTIYPSPEELEAVQNMVSTVECALKHVSDWLDETNKGTKAEGETEVKKDEAVD

Parental  TYSKDQGGRTLCGVMRIGLVAKGLLIKDDMDLELVLMCKDKPTETLLNTVKDNLPIQIQKLTEEKYEVEQ
          TYSKDQGGRTLCGVMRIGLVAKGLLIKDDMDLELVLMCKDKPTETLLNTVKDNLPIQIQKLTEEKYEVEQ
Retrocopy TYSKDQGGRTLCGVMRIGLVAKGLLIKDDMDLELVLMCKDKPTETLLNTVKDNLPIQIQKLTEEKYEVEQ

Parental  CVDEASIIIRNTKEPTLTLKVILTSPLIRDELEKKDGEKVAMKDPPDLLDRQKCLDALASLRHAKYKQAR
          CVDEASIIIRNTKEPTLTLKVILTSPLIRDELEKKDGEKVAMKDPPDLLDRQKCLDALASLRHAK..QAR
Retrocopy CVDEASIIIRNTKEPTLTLKVILTSPLIRDELEKKDGEKVAMKDPPDLLDRQKCLDALASLRHAKWFQAR

Parental  ANGLKSCVIVLRILRDLCNRVPTWAPLKGWPLELICEKSIGTCNRPLGAGEALRRVMECLASGILLPALA
          ANGLKSCVIVLRILRDLCNRVPTWAPLKGWPLELICEKS.GTCNRPLGAGEALRRVMECLASGILLP...
Retrocopy ANGLKSCVIVLRILRDLCNRVPTWAPLKGWPLELICEKSTGTCNRPLGAGEALRRVMECLASGILLP---

Parental  KGGPGLHDPCERDPTDALSYMTIQQKEDITHSAQHALRLSAFGQIYKVLEMDPLPSSKPFQKYSWSVTDK
          .GGPGLHDPCERDPTDALSYMTIQQKEDITHSAQHALRLSAFGQIYKVLEMDPLPSSKPFQKYSWSVTDK
Retrocopy -GGPGLHDPCERDPTDALSYMTIQQKEDITHSAQHALRLSAFGQIYKVLEMDPLPSSKPFQKYSWSVTDK

Parental  EGAGSSALKRPFEDGLGDDKDPNKKMKRNLRKILDSKAIDLMNALMRLNQIRPGLQYKLLSQSGPVHAPV
          EGAGSSALKRPFEDGLGDDKDPNKKMKRNLRKILDSKAIDLMNALMRLNQIRPGLQYKLLSQSGPVHAPV
Retrocopy EGAGSSALKRPFEDGLGDDKDPNKKMKRNLRKILDSKAIDLMNALMRLNQIRPGLQYKLLSQSGPVHAPV

Parental  FTMSVDVDGTTYEASGPSKKTAKLHVAVKVLQAMGYPTGFDADIECMSSDEKSDNEGKNETVSSNSSNNT
          FTMSVDVDGTTYEASGPSKKTAKLHVAVKVLQAMGYPTGFDADIECMSSDEKSDNEGKNETVSSNSSNNT
Retrocopy FTMSVDVDGTTYEASGPSKKTAKLHVAVKVLQAMGYPTGFDADIECMSSDEKSDNEGKNETVSSNSSNNT

Parental  GNSTTETSSTLEVRTQGPILTASGKNPVMELNEKRRGLKYELISETGGSHDKRFVMEVEVDGQKFRGAGP
          GNSTTETSSTLEVRTQGPILTASGKNPVMELNEKRRGLKYELISETGGSHDKRFVMEVEVDGQKFRGAGP
Retrocopy GNSTTETSSTLEVRTQGPILTASGKNPVMELNEKRRGLKYELISETGGSHDKRFVMEVEVDGQKFRGAGP

Parental  NKKVAKASAALAALEKLFSGPNAANNKKKKIIPQAKGVVNTAVSAAVQAVRGRGRGTLTRGAFVGATAAP
          NKKVAKASAALAALEKLFSGPNAANNKKKKIIPQAKGVVNTAVSAAVQAVRGRGRGTLTRGAFVGATAAP
Retrocopy NKKVAKASAALAALEKLFSGPNAANNKKKKIIPQAKGVVNTAVSAAVQAVRGRGRGTLTRGAFVGATAAP

Parental  GYIAPGYGAPYGYSTAAPAYGLPKRMVLLPVMKFPTYPVPHYSFF
          GYIAPGYGAPYGYSTAAPAYGLPKRMVLLPVMKFPTYPVPHYSFF
Retrocopy GYIAPGYGAPYGYSTAAPAYGLPKRMVLLPVMKFPTYPVPHYSFF

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
SRP017611_brain	5.62 RPM	15.15 RPM
SRP017611_kidney	1.86 RPM	8.35 RPM
SRP017611_liver	2.12 RPM	5.86 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_38 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_38 was not experimentally validated.

Homology

Retrocopy orthology:

Felis catus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000012137	1 retrocopy	retro_dord_543,
Felis catus	ENSFCAG00000004095	1 retrocopy	retro_fcat_38 ,