General information for g7286.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Polycomb group protein Psc.
Parent gene
- The parent gene g7286 is located on chr_2: 22702640..22707121 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_2 | g7286 | g7286.t1 | isoform | g7286.t1 | 22697600 | 22707121 |
| chr_2 | g7286 | g7286.t1 | exon | g7286.t1.exon1 | 22697600 | 22700263 |
| chr_2 | g7286 | g7286.t1 | cds | g7286.t1.CDS1 | 22697600 | 22700263 |
| chr_2 | g7286 | g7286.t1 | exon | g7286.t1.exon2 | 22700346 | 22700574 |
| chr_2 | g7286 | g7286.t1 | cds | g7286.t1.CDS2 | 22700346 | 22700574 |
| chr_2 | g7286 | g7286.t1 | exon | g7286.t1.exon3 | 22700645 | 22700848 |
| chr_2 | g7286 | g7286.t1 | cds | g7286.t1.CDS3 | 22700645 | 22700848 |
| chr_2 | g7286 | g7286.t1 | exon | g7286.t1.exon4 | 22701976 | 22702640 |
| chr_2 | g7286 | g7286.t1 | cds | g7286.t1.CDS4 | 22701976 | 22702640 |
| chr_2 | g7286 | g7286.t1 | exon | g7286.t1.exon5 | 22706750 | 22707121 |
| chr_2 | g7286 | g7286.t1 | cds | g7286.t1.CDS5 | 22706750 | 22707121 |
| chr_2 | g7286 | g7286.t1 | TSS | g7286.t1 | NA | NA |
| chr_2 | g7286 | g7286.t1 | TTS | g7286.t1 | NA | NA |
Sequences
>g7286.t1 Gene=g7286 Length=4134
ATGGATTTTGTACAAATTTTTCCAATTGAAATAAGTGAAATAATTTTTCAACATTTAACA
GTAAAAGAACTTCTCAAAACTACTTTAGTTTCAAAATCATGGAATAAATTCATCGGTGAA
TCAAGATCTTTAATGAAAAACGTTCAAATTGTCATCGATCTAAACAATGGAAGGAAAAAA
TATAAGAAAATTCTTACAAACAGTTCACGAATTTATCAACATGTTGTGCTTAATAAATTT
AGCAAAATTTCAAAAAAGAAAAATTTCAAATTGAAGAAATTCAAAGTTAAAATCAAAAAT
TTCTACTCGTTGATGTGTAGTTCTCAAGTAACAAATATTAATTCATTAGATCTCTTTGTT
CATCCATCAATGACACAAGAAGACAATCGAAGGAAGAAGAAAATGGTAAAAATCGACATT
GAAAAGGAAAAACTTACGATGGAATCAACCAAGAAAATGGATAAAATCCAGATTTTTCCT
TCACAAAAACAGCATAACAGTTTTAATAATAAAAATAAACCAAAACTTATTATGTCTCCA
TTAACGACAATGCCGAATGCAAAAAAACTTATGATTGCCGCAAATGCTCTGCCAATGAAG
CCTTTAATGGCCAATGAAAACAATTGCAGTGCAACAAAAGAGACTAATAATGTGAAAATA
ATTAAGACGTCGCCGCCACCACCACCATTACTCAACAGTACAATTTTACAAACGACCGCT
GTAAAAGTTATCCCTTCGATGCCAGTGATGAATGATAAACAGCCACAACCATTAGATGGC
AAGACGACATCAGTTGATGTAGAAAAAAATAATAGAAAAGAGACAGCTGGTTGTAGATCG
GAGAAGGAAAAGATAACATTAGGTGACGTGCATCCATACATTACATGCTTCTTATGCAAA
GGCTATTTAATAGAGGCTACAACAATTGTCGAATGTCTGCACACATATTGTCATAGTTGT
CTTATGAAACATCTTAGCCGCGAAAAATGCTGTCCTCAGTGCGATATGAGCATAAATAAA
TCAAAAACTAACATAAAATACGATGCGACAATTCAATCGATTGTATACAAACTTGTGCCT
GGATTATATGAGAAGGAATTGCTTCGACGAAGGGCTTTTTATAAGCAGCGACCAGAAGAA
GCAAAATTAGCAACCCCTGAAGAGAGAGGCGACGATACTGAACATTTAATTTTTAGTCCC
TCCGATCTCATGTCGTTATCGCTCGATTATGCTGAGAAAGAAACCCTTAAAGGGATGGAG
AATGATGCGAGTGTACAGAATTTATTAAAGCCCAAATATCTAAATTGCCCAGCAATTTTC
AAAGTCGAATATTTAAAGAAATTTATTATGAATAAATTTCTCATTAACAACAATCGTTTC
AATGTTGAAATTAGCTATAAAGTGAAAACTATAGTCCTTCCAGAGCACTACACACTTATG
GATGTTGCTTATATTTATACATGGAAAAAGGAAGCACCAATGCCTTTTTTCTTTCGAATA
ATTGCTAAAAATTCGAAATGCAATGAATTGCCTGAGGTTTCATTGCGCAGGTCACCAACA
TCGTTGACGAGCAAGAACGACGATTCTGATACATCCACATCTATAACATCATCGAAAAAG
AAGAGTGTTTCGTTTAAAGAGGATGTCGAATCGTCTCGAATTAAAGCTACTACAACTGAA
AATAAAGTATCGAGTGGTGTGAGTAAAACATCACCTCCTGAGAATCCACAGCCTCGAGTT
GAGAGCATCAAATTGAAGTTTGATCCATCTAACAACAATGTGAGCATCATTAAACCTGAT
GGTACAGTTGAAGTGAAGCCACATAAGAAAGAAAAGCGTGACAAGGAAAGTAAAAAGAAT
GCCAATCGATTTGAGAGTTTTCTCAATGAACTTAAGTCAACTCCTAGTGAAAAGAAAGAT
GAATACGAATTTGATGATGAAATTGAAAGACAAAAGCTCGGATTTCTCAATACATTCCAA
CTAACTGCAAAGAAAATGCTCATACCAAAGGGCAATGTGCAGAATAACAATAAAACGAAA
AAGGATGAAAACAGTAGTAGTAGCAGTAGTGAAGAGGGTAAAAATCTTTTATCAAAAACA
TCGACTGAAAATAATAATAATAGCAACAGCAATAGCAGTAAACGAAAGAATAAAGAACCA
GTGAAGACTGAAAAGGCAAAAAAATATAAATTCCACGAAATGAAGTCACTTAGCGAAGAG
AATAAGTTTCTGTTTACAAAAACGGGTGATGGGCATGAAATAAAATTTGATATGTCGCCA
AAGCCTTTGGGAAGCAAGCCGCCACTGAGCAAAGTAAAGAGCGACATTTTGATGGCACAG
CAACGTGCCGATGCGAAGGCCATCCAAAGTAAAACTGAAACAACTACTGCTAACGTTGCT
ACAAATAATACTAACAATAATACCAACAGTTCAAACGAGAAAGCAAAAAATATTCCTGCA
AAACAACCTAAAAAACTGCCCTTGCTTCTACCAAAACAACCGCCAGCAGTAACACAAACA
GCAATCGCTCCCTCTTTAATGTCACCAACGGCGTTTGTAATTAAAAAACCCGATCCAAAG
CAATCGACTGATATTGCAACAACGTCAGAGATAAGCGTCACGAAAATTAATGATCAGAGT
CATCAGTATCGAGTTTATGGTCCCAAAACGCCCGAGAAAAAGAAGTCAGAATCTGCTGAA
TTCAAACCACCCGCTGATGTTTTTGCACAACCATTACCACCAAAGCCGAAGGCAAATTCA
CCCGCTTTGCCACCCACTTCCGCATCATCACAAACACACACAGCACAAAAACCATTCGGC
TTTGCACCGAAACAGCCTAAGAATATTCCAGAGAATATGCAAACACCTTATGGCAGTAGA
ACACCGTTTTATGTGCCGAGTAGTCCATCGTATACGCCAAATTTCGATCCTAAGCCTCAA
TTTAAATATGCAAATCCAAATGCTTATGCTTCATTCATGCAATCAATGTTTTGTGCCGAT
AAAATTTCTCCTCCACCAATTAATTCTATGCCCGCACCTAAAACATCAACTGAATCACGT
AAAAGACTTTCACCAAACGACAATTCTCCAGTGCCATCAAAACGCAAATCACCTTCACCT
ACAAAGACAGCAACAACAGTAAACAATGGAAATAAAGAGCCAGAAACAAAAGCAATTTCC
ATTTTGAACAAAATTAATTTTCCTTCTTCACTAAGTGTAACACTCACGAATGAGCAGGAA
GAAAATAAAAAAGAACAGCTGCGAAATCAAAGTCAAAGTGTGAATAACAACATTGAGATA
ATTAAAATTTCTGATGAAACAGAAGCAAAAATGTCAGCAGCAGTTTCTAAATCTCAATCA
TCACCAAAAGAAGGAAAATCATCATCAGCAGCAGCAACGAGTGAAGAAAGTAAACCAGTT
CAAAAGAAACTTCCAGAATTGAAAAAATTGTCACCAATTTTACCAGCTCCTACACCACCT
ACAAGCAGCAACAATAAAATGCTACCACCATCATCTTCATCCGTCCTAAATCAACCACCA
GTGAAATTTAATGAATCAAAAGAAAGTTTTCAACGTGCATTCCTTGAATCTCTAATGCAT
GTCACAAAAAACAGTGAAATAAATAAAACTAACAATAGTCAACGTAAGAAGGAAGCAAAG
CCTGCAATTGATGCTTTGAAGCCTCTTAATAGTAAAGATTTGGAAAGTAAATTGGAATCA
AAGAAAGATAATGCGGCAGTTTCACAACAAAAGAAAAATTTATCACTGACGCCTCCGCTA
ACGAAAAATAACAGCGAGAAATCAAATGCTTTAAAATCATTGACACCACCGCCACCAATT
CCAATGCAAGAGCATGGATTCTTTTCACCAGCAGTTGCTTCAGCTTCAGCTATGCAATTC
AATTTCATGCTAAATGCTTTAAACGCAGCAGCATCAAATGCTCAATTTCCATTTCCAAAT
CCCATTGACATTCAACGGACAATGATGCTTGAAACATTGAGAAAAAATGTCGAAACATCG
AGTGCATTACTTGCTATGCGCCATCATCATCAGCTGCAACAGCAAAATCAAAAAATATCA
CCAAAATCATCTTCGTCTTCTTCCAATTCTTCGTCATCATCATCGAAGCATTAA
>g7286.t1 Gene=g7286 Length=1377
MDFVQIFPIEISEIIFQHLTVKELLKTTLVSKSWNKFIGESRSLMKNVQIVIDLNNGRKK
YKKILTNSSRIYQHVVLNKFSKISKKKNFKLKKFKVKIKNFYSLMCSSQVTNINSLDLFV
HPSMTQEDNRRKKKMVKIDIEKEKLTMESTKKMDKIQIFPSQKQHNSFNNKNKPKLIMSP
LTTMPNAKKLMIAANALPMKPLMANENNCSATKETNNVKIIKTSPPPPPLLNSTILQTTA
VKVIPSMPVMNDKQPQPLDGKTTSVDVEKNNRKETAGCRSEKEKITLGDVHPYITCFLCK
GYLIEATTIVECLHTYCHSCLMKHLSREKCCPQCDMSINKSKTNIKYDATIQSIVYKLVP
GLYEKELLRRRAFYKQRPEEAKLATPEERGDDTEHLIFSPSDLMSLSLDYAEKETLKGME
NDASVQNLLKPKYLNCPAIFKVEYLKKFIMNKFLINNNRFNVEISYKVKTIVLPEHYTLM
DVAYIYTWKKEAPMPFFFRIIAKNSKCNELPEVSLRRSPTSLTSKNDDSDTSTSITSSKK
KSVSFKEDVESSRIKATTTENKVSSGVSKTSPPENPQPRVESIKLKFDPSNNNVSIIKPD
GTVEVKPHKKEKRDKESKKNANRFESFLNELKSTPSEKKDEYEFDDEIERQKLGFLNTFQ
LTAKKMLIPKGNVQNNNKTKKDENSSSSSSEEGKNLLSKTSTENNNNSNSNSSKRKNKEP
VKTEKAKKYKFHEMKSLSEENKFLFTKTGDGHEIKFDMSPKPLGSKPPLSKVKSDILMAQ
QRADAKAIQSKTETTTANVATNNTNNNTNSSNEKAKNIPAKQPKKLPLLLPKQPPAVTQT
AIAPSLMSPTAFVIKKPDPKQSTDIATTSEISVTKINDQSHQYRVYGPKTPEKKKSESAE
FKPPADVFAQPLPPKPKANSPALPPTSASSQTHTAQKPFGFAPKQPKNIPENMQTPYGSR
TPFYVPSSPSYTPNFDPKPQFKYANPNAYASFMQSMFCADKISPPPINSMPAPKTSTESR
KRLSPNDNSPVPSKRKSPSPTKTATTVNNGNKEPETKAISILNKINFPSSLSVTLTNEQE
ENKKEQLRNQSQSVNNNIEIIKISDETEAKMSAAVSKSQSSPKEGKSSSAAATSEESKPV
QKKLPELKKLSPILPAPTPPTSSNNKMLPPSSSSVLNQPPVKFNESKESFQRAFLESLMH
VTKNSEINKTNNSQRKKEAKPAIDALKPLNSKDLESKLESKKDNAAVSQQKKNLSLTPPL
TKNNSEKSNALKSLTPPPPIPMQEHGFFSPAVASASAMQFNFMLNALNAAASNAQFPFPN
PIDIQRTMMLETLRKNVETSSALLAMRHHHQLQQQNQKISPKSSSSSSNSSSSSSKH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g7286.t1 | CDD | cd16525 | RING-HC_PCGF | 294 | 335 | 4.86987E-20 |
| 10 | g7286.t1 | Coils | Coil | Coil | 1077 | 1097 | - |
| 11 | g7286.t1 | Coils | Coil | Coil | 1231 | 1251 | - |
| 8 | g7286.t1 | Gene3D | G3DSA:1.20.1280.50 | - | 1 | 101 | 1.6E-7 |
| 9 | g7286.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 280 | 384 | 3.4E-19 |
| 7 | g7286.t1 | Gene3D | G3DSA:3.10.20.90 | - | 394 | 507 | 1.8E-30 |
| 15 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 512 | 580 | - |
| 31 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 514 | 540 | - |
| 21 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 541 | 555 | - |
| 32 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 556 | 577 | - |
| 28 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 600 | 644 | - |
| 20 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 602 | 625 | - |
| 33 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 666 | 733 | - |
| 40 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 669 | 714 | - |
| 23 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 715 | 733 | - |
| 26 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 784 | 827 | - |
| 27 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 785 | 817 | - |
| 25 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 854 | 959 | - |
| 38 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 861 | 884 | - |
| 37 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 887 | 901 | - |
| 35 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 907 | 921 | - |
| 36 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 922 | 938 | - |
| 39 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1004 | 1063 | - |
| 16 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1012 | 1063 | - |
| 18 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1075 | 1184 | - |
| 24 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1088 | 1102 | - |
| 22 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1111 | 1136 | - |
| 17 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1165 | 1184 | - |
| 34 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1205 | 1270 | - |
| 30 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1230 | 1246 | - |
| 19 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1247 | 1270 | - |
| 29 | g7286.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1348 | 1377 | - |
| 3 | g7286.t1 | PANTHER | PTHR10825:SF72 | POLYCOMB GROUP PROTEIN PSC-RELATED | 282 | 734 | 1.9E-106 |
| 4 | g7286.t1 | PANTHER | PTHR10825 | RING FINGER DOMAIN-CONTAINING, POLYCOMB GROUP COMPONENT | 282 | 734 | 1.9E-106 |
| 2 | g7286.t1 | Pfam | PF00646 | F-box domain | 8 | 42 | 4.2E-4 |
| 1 | g7286.t1 | Pfam | PF16207 | RAWUL domain RING finger- and WD40-associated ubiquitin-like | 432 | 499 | 8.1E-14 |
| 14 | g7286.t1 | ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 312 | 321 | - |
| 42 | g7286.t1 | ProSiteProfiles | PS50181 | F-box domain profile. | 1 | 48 | 9.815 |
| 41 | g7286.t1 | ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 296 | 335 | 10.38 |
| 13 | g7286.t1 | SMART | SM00256 | fbox_2 | 7 | 48 | 3.5E-4 |
| 6 | g7286.t1 | SUPERFAMILY | SSF81383 | F-box domain | 2 | 50 | 6.41E-10 |
| 5 | g7286.t1 | SUPERFAMILY | SSF57850 | RING/U-box | 288 | 342 | 5.42E-10 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K11459 (polycomb group RING finger protein 4)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
