RetrogeneDB ID: retro_acar_14

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: GL343631.1:20560..21943(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSACAG00000005268
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000006165
• Aliases: None
• Description: None

Sequence

>retro_acar_14
TTTCCAGAAGCCTCGCCTCCCTTGAAGCTTTTGCCGGAGGAGAAATACAAGTCCATGTTCCTGTACAACGGCCTCTGGCT
AGGCCCCAAAAATGGCTGCGAATGTGTCAAGAAGGACAAGCTGGTGGTCTATCAAATGGAACGTTCTATCGACAAGGACA
AGCTGGCTGCGGTCACAAAGAGACGCGAGAAAGAATTCAAGGATTATCAGAGAAGATATTCCTATCGGGAAAAGGACGTC
GTCGTTGCTCGGCCCAACGTGCCTTTGAGCTACCCCATCCAAGGAGCCGAGGTGATGCCTTTCCACACCATTGTCATCCC
AGGGCTTGGCTTCCATGGAGGACATGCGGAGGAGAAACATAAGGTGACCTTAGAGGCATCCTTGGGTACTTTGGACACAC
TTGCCGACGTCCCCCAATACGTTGTGAATGGGCGAGGGAAGAAAAAACTGACCATCTCCACTGCTCACGTGGAGCTTCTC
AACCACATCTTGAAACACGTCACATACACGAGTACGGAATATTTACTGCATGCAGTGGACTTCATGAGCTTTTCAACAGG
GCATCACCACGTGATGTTCCCGGTGATGATCCGGCAGCCCTACATGCCGAAGTTGTTCGATCCAGGGCCGGATAACAACA
TCCGCGATTTAGTGACCATCACAACAAAGACTTTCTTCCGTTACCACAAGCTGCGGGCCCTGATCAAGAGCATCAGGAAG
TTCTATCCGGATATAACCATCATTGTGGCCGACGACAACGAACATCCCGAGAAGATCGAAGAACCTCACGTCGAACATTT
CATCATGCCGTTTGCAAAGGGTTGGTTTGCCGGGAGGAATCTCGCCGTCTCTCAGGTCACAACGAAATACTACCTTTGGG
TGGATGATGACTTCTTGTTCACGGAGGAAACCAAGATCGAGGAATTGGTGGCCGTGTTGGAGAACACCAACTTGGACGTG
GTTGGCGGCTCCGTTCAACGAAACGATTACAAGTTCCGGATCATTTACGAGGAAGGAGACGGCAGCAGCTGTGTACACCT
CAGGTTCGGCTCTTACCACCGCTTAGAAGGCTTTCCTCATTGCGTGGTCGCCAGCAGCGTGGTCAACTTCTTCCTTGCCC
GTATGGAGGAGACCAGATGCGTTGGGTTTGACCCAAAGCTGCGGAGAGTGGCTCACTCGGAATATTTTGTGGACGGGCTG
GGGCGTTTGCGGGTCGGTTCCTGCAATCATGTCACTGTGGACCACCAGCCTCTTGATACTGCAAAGAATTCGGACGAGCG
TAATGCTGAGCACACATATAGTAAATACCGGGACAGCACACCGGAACAGGTCCAGTTTAAGATGGCTTTGTGGTTCTTTA
AGTACAGGATGAAATGCTTGTCA

Alignment

ORF - retro_acar_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.73 %
• Parental protein coverage: 90.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FPEASPPFKLLPEKKYKSMFLYNDIWLGPKNYCECVQKDKEQIYQLDNYIDKDKLASVTKRREKEFKDYQ
          FPEASPP.KLLPE.KYKSMFLYN..WLGPKN.CECV.KDK...YQ....IDKDKLA.VTKRREKEFKDYQ
Retrocopy FPEASPPLKLLPEEKYKSMFLYNGLWLGPKNGCECVKKDKLVVYQMERSIDKDKLAAVTKRREKEFKDYQ

Parental  RRYSYQKKDVLVAQPNVPLSYPIQGAEVMPLHTIVIPGLSFHGENTE-KQKVTLEASFGTLDTLADVPQD
          RRYSY..KDV.VA.PNVPLSYPIQGAEVMP.HTIVIPGL.FHG...E.K.KVTLEAS.GTLDTLADVPQ.
Retrocopy RRYSYREKDVVVARPNVPLSYPIQGAEVMPFHTIVIPGLGFHGGHAEEKHKVTLEASLGTLDTLADVPQY

Parental  VMNGRGMKKLIISTAHVDLLNHILKHVTYTSTEYLLDTVDFVNFTTGDHHVKFPVTIRQPYMPKLFDPGP
          V.NGRG.KKL.ISTAHV.LLNHILKHVTYTSTEYLL..VDF..F.TG.HHV.FPV.IRQPYMPKLFDPGP
Retrocopy VVNGRGKKKLTISTAHVELLNHILKHVTYTSTEYLLHAVDFMSFSTGHHHVMFPVMIRQPYMPKLFDPGP

Parental  DNNIRNLVTITTKTFFRYHKLRILIKSIRKFYPDITIIVADDSEHPEKIEEPNVEHFIMPFAKGWFAGRN
          DNNIR.LVTITTKTFFRYHKLR.LIKSIRKFYPDITIIVADD.EHPEKIEEP.VEHFIMPFAKGWFAGRN
Retrocopy DNNIRDLVTITTKTFFRYHKLRALIKSIRKFYPDITIIVADDNEHPEKIEEPHVEHFIMPFAKGWFAGRN

Parental  LAISQVTTKYYLWVDDDFVFTEKTKIEEFVAVLENTNLDVVGGAVQGNDYKFRVIYEEGEDSSCVHLRFG
          LA.SQVTTKYYLWVDDDF.FTE.TKIEE.VAVLENTNLDVVGG.VQ.NDYKFR.IYEEG..SSCVHLRFG
Retrocopy LAVSQVTTKYYLWVDDDFLFTEETKIEELVAVLENTNLDVVGGSVQRNDYKFRIIYEEGDGSSCVHLRFG

Parental  SYHRLEGFPHCVVTSGVVNFFLARTEESRCIGFDPKLLRVAHSEYFVDGLGRLRVGSCYHVDVGHQPHDP
          SYHRLEGFPHCVV.S.VVNFFLAR.EE.RC.GFDPKL.RVAHSEYFVDGLGRLRVGSC.HV.V.HQP.D.
Retrocopy SYHRLEGFPHCVVASSVVNFFLARMEETRCVGFDPKLRRVAHSEYFVDGLGRLRVGSCNHVTVDHQPLDT

Parental  AKDLEERKAEHTYSKFRANTQEQVQFKLALQFFKNRMKCFS
          AK...ER.AEHTYSK.R..T.EQVQFK.AL.FFK.RMKC.S
Retrocopy AKNSDERNAEHTYSKYRDSTPEQVQFKMALWFFKYRMKCLS

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
SRP009831_adrenal	0.00 RPM	0.13 RPM
SRP009831_brain	0.05 RPM	0.00 RPM
SRP009831_dewlap	0.08 RPM	412.93 RPM
SRP009831_embryo	0.00 RPM	1.69 RPM
SRP009831_heart	0.05 RPM	0.83 RPM
SRP009831_liver	0.00 RPM	0.98 RPM
SRP009831_lung	0.00 RPM	2.22 RPM
SRP009831_ovary	0.04 RPM	459.28 RPM
SRP009831_skeletal_muscle	0.00 RPM	0.04 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_14 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_14 was not experimentally validated.

Homology

Retrocopy orthology:

Anolis carolinensis 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.

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000006165	1 retrocopy	retro_acar_14 ,