RetrogeneDB ID: | retro_dord_479 | ||
Retrocopy location | Organism: | Kangaroo rat (Dipodomys ordii) | |
| Coordinates: | scaffold_21936:7727..9128(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Slc34a2 | ||
| Ensembl ID: | ENSDORG00000016105 | ||
| Aliases: | None | ||
| Description: | solute carrier family 34 (sodium phosphate), member 2 [Source:MGI Symbol;Acc:MGI:1342284] |
Retrocopy-Parental alignment summary:
>retro_dord_479
TTGACTGTAAGGGCTGCCATCCCCATCATCATGGGGGCAAACATTGGAACTTCCATCACTAATACTGTTGTGGCACTTAT
GCAGGCAGGAGACAGAAATGAATTCAGAAGGGCTTTTGCAGGGGCCACTGTCCATGACTTCTTCAACTGGTTATCTGTGT
TGGTTCTTTTGCCACTAGAGGTCATCGCCCACTACCTGGAGGTCCTGACCAACCTTGTGGTGGACACTTTCCATTTCAAG
AACAGGGAAGATTCCCAAGCCCTTCTGAAAGTCTTTACGGATCCCTTCACAAAGCTCATTATCCAGCTGGATAAAACCGT
TATCCACCAAATTGCAATGAATGATCCTACAGCCCAAAACAAGAGTCTGATCAAGATTTGGTGCAAAACTCTTACCAACA
TGACTCTGATGAATGTCACAGTCCCCTTCCCTGAGAACTGTACCTCCCCTTTCCTCTGTTGGACAGATGGCATCAACATC
TGGACCATCAAGAATGTGACCCACATGGAGAACATTGCTAAATGCCAGCATATATTTGTGAATTTCAACCTTCCAGATTT
TGTTGTGGGCATCATCCTGCTCATCATCTCCCTGCTTGTTCTCTGTGGCTGTCTGATCATAATCATCAAACTCTTGGCAT
CCGTGCTCAAGGGGAAGGTGGCTTCTGTCATCAAGAAGACCATCAACACTGATTTCTCCTTTCCCTTTGCATGGGTGACT
GGTTACTTGGCCATCCTAGTGGGGGCAGGCATGACATTCATCGTGCAAAGCAGCTCGGTGTTTACATCTGCCATGACTCC
GCTGATTGGTATGGGAGTGATAACCATTGAGAGGGCATATCCACTCACTCTAGGTTCCAACATCGGCACCACTACCACCG
CCATCCTGGCTGCCTTAGCTAGTCCAGGCTACACACTGAAGAGTTCACTCCAGATAGCCCTGTGCCACTTTTTTTTCAAT
GTCTCCGGCATCCTGCTGTGGTACCCAATCCCTTTCACTCGCCTTCCCATCCGCCTGGCCAAGGGCCTGGGCAACATCTC
TGCCAAATACCGCTGGTTTGCCGTCTTCTACCTGATCTTCTTCTTCTTTCTGATACCGCTGGCAGTATTTGGCCTCTCTC
TGGCCGGCTGGCGAGTGCTGGTGGGTGTTGGGGTGCCCATTGCCTTCCTGGTGCTTCTGGTCGTTTTCCTCCAGCTGCTG
CAATCCCACCACCCACATATCTTGCCCCAGAAGCTCCGAGATTGGAACTTCCTGCCCTCCTGGATGCACTCTCTGAAGCC
CTGGGACCACCTCATCTCCCTGACCATCTCTGGCTGCCAGAACCGGTGCAGCCACGTATGCTGCCTGATGTATGGCTGTG
CCAAGTGCTGCTACTGTAGCAAGTGCTGTGAGGACCAGAAG
ORF - retro_dord_479 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.34 % |
| Parental protein coverage: | 76.85 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LTVRAAIPIIMGANIGTSITNTIVALMQAGDRSEFRRAFAGATVHDFFNWLSVLVLLPLEAITHYLELLT |
| LTVRAAIPIIMGANIGTSITNT.VALMQAGDR.EFRRAFAGATVHDFFNWLSVLVLLPLE.I.HYLE.LT | |
| Retrocopy | LTVRAAIPIIMGANIGTSITNTVVALMQAGDRNEFRRAFAGATVHDFFNWLSVLVLLPLEVIAHYLEVLT |
| Parental | NLVVESFNFKNGEDAPALLKVITDPFTKLIIQLDKNVIHQIAMNDPSAQNKSLIKIWCKTLTNVTEMNVT |
| NLVV..F.FKN.ED..ALLKV.TDPFTKLIIQLDK.VIHQIAMNDP.AQNKSLIKIWCKTLTN.T.MNVT | |
| Retrocopy | NLVVDTFHFKNREDSQALLKVFTDPFTKLIIQLDKTVIHQIAMNDPTAQNKSLIKIWCKTLTNMTLMNVT |
| Parental | VPSPVNCTSASLCWTDGIHTWTIKNVTQKENIAKCQHIFVNSNLPDLAVGIILLSISLLVLCGCLIMIVK |
| VP.P.NCTS..LCWTDGI..WTIKNVT..ENIAKCQHIFVN.NLPD..VGIILL.ISLLVLCGCLI.I.K | |
| Retrocopy | VPFPENCTSPFLCWTDGINIWTIKNVTHMENIAKCQHIFVNFNLPDFVVGIILLIISLLVLCGCLIIIIK |
| Parental | LLGSVLKGQVAVVIKKTLNTDFPFPFAWVTGYLAILVGAGMTFIVQSSSVFTSALTPLIGIGVITIERAY |
| LL.SVLKG.VA.VIKKT.NTDF.FPFAWVTGYLAILVGAGMTFIVQSSSVFTSA.TPLIG.GVITIERAY | |
| Retrocopy | LLASVLKGKVASVIKKTINTDFSFPFAWVTGYLAILVGAGMTFIVQSSSVFTSAMTPLIGMGVITIERAY |
| Parental | PLTLGSNIGTTTTAILAALASPGNTLKSSLQIALCHFFFNISGILLWYPIPFTRLPIRLAKGLGNISAKY |
| PLTLGSNIGTTTTAILAALASPG.TLKSSLQIALCH...N.SGILLWYPIPFTRLPIRLAKGLGNISAKY | |
| Retrocopy | PLTLGSNIGTTTTAILAALASPGYTLKSSLQIALCHXXXNVSGILLWYPIPFTRLPIRLAKGLGNISAKY |
| Parental | RWFAIFYLIFFFFLTPLAVFGLSLAGWPVLVGGGVPIVLLILLVVCLRMLQSRCPRILPLRLRDWNFLPD |
| RWFA.FYLIFFFFL.PLAVFGLSLAGW.VLVG.GVPI..L.LLVV.L..LQS..P.ILP..LRDWNFLP. | |
| Retrocopy | RWFAVFYLIFFFFLIPLAVFGLSLAGWRVLVGVGVPIAFLVLLVVFLQLLQSHHPHILPQKLRDWNFLPS |
| Parental | WMHSLKPWDRYISLATTCFQRRC--CCCCRVCCRVCCMVCGCNKCCRCSK |
| WMHSLKPWD..ISL.....Q.RC...CC....C..CC....C.KCC...K | |
| Retrocopy | WMHSLKPWDHLISLTISGCQNRCSHVCCLMYGCAKCCY---CSKCCEDQK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_479 was not experimentally validated.
Retrocopy orthology:
Dipodomys ordii 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dipodomys ordii | ENSDORG00000016105 | 1 retrocopy |
retro_dord_479 ,
|
| Myotis lucifugus | ENSMLUG00000000694 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000012971 | 1 retrocopy |