RetrogeneDB ID: | retro_sscr_361 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 13:203863062..203864596(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | TOX4 | ||
Ensembl ID: | ENSSSCG00000029203 | ||
Aliases: | None | ||
Description: | TOX high mobility group box family member 4 [Source:HGNC Symbol;Acc:20161] |
Percent Identity: | 88.59 % |
Parental protein coverage: | 82.9 % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 3 |
Parental | DLDHSIGTQYSANPPVTIDVPMTDMTSGL-MGHSQLTTIDQSELSSQLGLS-LGGGTILPPAQSPEDRLS |
DLDHSIG.QYSANPPV.IDVP.TDMTSGL.MGHSQLTTIDQSELSSQLGLS.L....ILPPAQSPED.LS | |
Retrocopy | DLDHSIGAQYSANPPVAIDVPVTDMTSGL>MGHSQLTTIDQSELSSQLGLS<LXXXPILPPAQSPEDHLS |
Parental | TTP-SPTSSLHEDGVEEFRRQLPSQKTVVVEAGKKQKAPKKRKKKDPNEPQKPVSAYALFFRDTQAAIKG |
TTP.S.TSSLHEDGVEEF.RQLPSQKTV.VEAGKKQKAPK.RKKKDPNEPQKPV.AY.LFFRDTQAAIKG | |
Retrocopy | TTP>SLTSSLHEDGVEEFQRQLPSQKTVLVEAGKKQKAPK-RKKKDPNEPQKPVAAYVLFFRDTQAAIKG |
Parental | QNPNATFGEVSKIVASMWDSLGEEQKQVYKRKTEAAKKEYLKALAAYKDNQECQATVETVELDPAPPSQT |
QNPNATFGEVSKIVASM.DSLGEEQKQVYKRKTEAAKKEY.KALAAYK.NQECQATVETVELDPAPPSQT | |
Retrocopy | QNPNATFGEVSKIVASM*DSLGEEQKQVYKRKTEAAKKEYVKALAAYKGNQECQATVETVELDPAPPSQT |
Parental | PSPPPVATTADPASPAPATTEPPALSPSIVVNSTLSSYVTNQASSGAGGQPNITKLIITKQMLPSSITMS |
PS.PPVATTADPASPAPA.TEPPALSPSIVVNSTLSSYVTNQASSGAGGQP.ITKLIITKQMLP.S.TM. | |
Retrocopy | PSSPPVATTADPASPAPAMTEPPALSPSIVVNSTLSSYVTNQASSGAGGQPSITKLIITKQMLPPSVTMY |
Parental | QGGMVTVIPATVVTSRGLQLGQTSTATIQPSQQAQIVTRSVLQAAAAAAASMQLPPPRLQPPPLQQMPQP |
QGGMVT.IPATVVTS..LQLGQTSTAT..PSQQAQI.TRS.LQ.AAAAAASMQL.PPRLQPPPL.QMPQP | |
Retrocopy | QGGMVTFIPATVVTSWELQLGQTSTATTKPSQQAQIITRSMLQ-AAAAAASMQLLPPRLQPPPLPQMPQP |
Parental | PTQQQVTILQQPPPLQAMQQPPPQKFRINLQQQPPPLQVKIVPPPTLKMQTTLVPPPVENSPEQPMNSSP |
P.QQQVTILQQ.PPLQAMQ.PPPQKFRINLQQQPPP.QVKIVPPPTLKMQTTLVPPPVENSPE.PMNSSP | |
Retrocopy | PAQQQVTILQQLPPLQAMQKPPPQKFRINLQQQPPPRQVKIVPPPTLKMQTTLVPPPVENSPE-PMNSSP |
Parental | EAHTVEETSPETICEMITDVVPEVESPPQMDVELVDESPVTLSPQPRCVRSGCENPPVVSKDWDNEYCSN |
EAHT.E.TS.ETICEMITD.VPEV.SPPQMDVE.VDESPV.LSPQP.CV.SGCENPPVV.KDW..E.CS. | |
Retrocopy | EAHTAEKTSSETICEMITDGVPEVASPPQMDVE*VDESPVRLSPQPQCVKSGCENPPVVRKDWGTE*CST |
Parental | ECVVKHCRDVFLAWVASRNSNTVVFVK |
E.VVKH.RDVF.AWVASRNSNTVV.VK | |
Retrocopy | EYVVKHSRDVFSAWVASRNSNTVVVVK |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .00 RPM | 59 .99 RPM |
SRP014902_testis | 0 .14 RPM | 35 .93 RPM |
SRP018288_heart | 0 .03 RPM | 28 .34 RPM |
SRP018288_kidney | 0 .00 RPM | 37 .04 RPM |
SRP018288_liver | 0 .00 RPM | 27 .82 RPM |
SRP018288_lung | 0 .00 RPM | 89 .61 RPM |
SRP018856_adipose | 0 .15 RPM | 92 .06 RPM |
SRP035408_brain | 0 .03 RPM | 13 .09 RPM |
SRP035408_liver | 0 .00 RPM | 12 .07 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000006261 | 1 retrocopy | |
Canis familiaris | ENSCAFG00000005647 | 2 retrocopies | |
Choloepus hoffmanni | ENSCHOG00000000714 | 2 retrocopies | |
Homo sapiens | ENSG00000092203 | 1 retrocopy | |
Macropus eugenii | ENSMEUG00000010501 | 1 retrocopy | |
Mustela putorius furo | ENSMPUG00000000181 | 1 retrocopy | |
Mus musculus | ENSMUSG00000016831 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000014556 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000005598 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000006126 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000029203 | 1 retrocopy |
retro_sscr_361 ,
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