RetrogeneDB ID: retro_btau_1845

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: X:102495016..102495302(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARPP19
• Ensembl ID: ENSBTAG00000011022
• Aliases: ARPP19, ARPP-16, ARPP-19
• Description: cAMP-regulated phosphoprotein 19 [Source:UniProtKB/Swiss-Prot;Acc:Q28055]

Sequence

>retro_btau_1845
ATGTTCATGGAAGTCCCTGAGACAGCCTCCATGGAGGAGCAGAAAGAAATGGAAGATAAAGTGACTAGTCCAGAGAAAGC
GGAAGAAACAAAATTAAAAGCAAAGTATCCTCATCTGAGACAAAAGCCTAGAGGTTCAGATTTTTTAAGGAAATGATTGC
TGAAAGGGCAAAAAATATTTTGATTCTTGGAATTACAGTATGGCTATATCACAGCCACAGATAAGACAGAGGTCACTGGT
GACCACATTCCCACTCCATACAACCTTCCTCAATGGTAATCATCTC

Alignment

ORF - retro_btau_1845 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.54 %
• Parental protein coverage: 82.14 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSAEVPEAASAEEQKEMEDKVTSPEKAEEAKLKARYPHLGQKPGGSDFLRKRLQKGQ-KYFDSGDYNMA-
          M..EVPE.AS.EEQKEMEDKVTSPEKAEE.KLKA.YPHL.QKP.GSDFLRK.L.KGQ.KYFDS..Y.MA.
Retrocopy MFMEVPETASMEEQKEMEDKVTSPEKAEETKLKAKYPHLRQKPRGSDFLRK*LLKGQ>KYFDSWNYSMAI

Parental  -KAKMKNKQLPTATP-DKTEVTGDHI
          .........L.T..P...T...G.H.
Retrocopy SQPQIRQRSLVTTFPLHTTFLNGNHL

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
ERP005899_liver	0.14 RPM	23.86 RPM
ERP005899_muscle	0.05 RPM	20.22 RPM
SRP017611_brain	0.14 RPM	122.97 RPM
SRP017611_kidney	0.30 RPM	48.78 RPM
SRP017611_liver	0.15 RPM	9.74 RPM
SRP030211_testis	0.04 RPM	83.42 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_1845 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_1845 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_1845 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 16 parental genes, and 48 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000011022	5 retrocopies	retro_btau_1259, retro_btau_1821, retro_btau_1845 , retro_btau_952, retro_btau_981,
Canis familiaris	ENSCAFG00000032515	2 retrocopies	retro_cfam_1375, retro_cfam_1402,
Cavia porcellus	ENSCPOG00000011228	1 retrocopy	retro_cpor_1148,
Dasypus novemcinctus	ENSDNOG00000004474	9 retrocopies	retro_dnov_1086, retro_dnov_1576, retro_dnov_1960, retro_dnov_2150, retro_dnov_2427, retro_dnov_557, retro_dnov_616, retro_dnov_644, retro_dnov_662,
Dipodomys ordii	ENSDORG00000011321	2 retrocopies	retro_dord_194, retro_dord_33,
Echinops telfairi	ENSETEG00000015550	1 retrocopy	retro_etel_585,
Homo sapiens	ENSG00000128989	2 retrocopies	retro_hsap_2130, retro_hsap_3280,
Gorilla gorilla	ENSGGOG00000025250	1 retrocopy	retro_ggor_198,
Nomascus leucogenys	ENSNLEG00000006551	2 retrocopies	retro_nleu_2533, retro_nleu_2884,
Oryctolagus cuniculus	ENSOCUG00000015489	10 retrocopies	retro_ocun_1182, retro_ocun_1297, retro_ocun_1398, retro_ocun_1573, retro_ocun_1731, retro_ocun_1768, retro_ocun_310, retro_ocun_473, retro_ocun_479, retro_ocun_698,
Otolemur garnettii	ENSOGAG00000013865	1 retrocopy	retro_ogar_591,
Pongo abelii	ENSPPYG00000006487	2 retrocopies	retro_pabe_120, retro_pabe_1923,
Pan troglodytes	ENSPTRG00000042183	1 retrocopy	retro_ptro_1559,
Sus scrofa	ENSSSCG00000004618	1 retrocopy	retro_sscr_603,
Ictidomys tridecemlineatus	ENSSTOG00000003677	7 retrocopies	retro_itri_1075, retro_itri_1290, retro_itri_1339, retro_itri_1643, retro_itri_1657, retro_itri_1865, retro_itri_594,
Tursiops truncatus	ENSTTRG00000004804	1 retrocopy	retro_ttru_172,