General information for g6863.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear valosin-containing protein-like.
Parent gene
- The parent gene g6863 is located on chr_2: 19278761..19282366 (- 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 | g6863 | g6863.t1 | TTS | g6863.t1 | 19276857 | 19276857 |
| chr_2 | g6863 | g6863.t1 | isoform | g6863.t1 | 19277143 | 19280293 |
| chr_2 | g6863 | g6863.t1 | exon | g6863.t1.exon1 | 19277143 | 19277199 |
| chr_2 | g6863 | g6863.t1 | cds | g6863.t1.CDS1 | 19277143 | 19277199 |
| chr_2 | g6863 | g6863.t1 | exon | g6863.t1.exon2 | 19277262 | 19277807 |
| chr_2 | g6863 | g6863.t1 | cds | g6863.t1.CDS2 | 19277262 | 19277807 |
| chr_2 | g6863 | g6863.t1 | exon | g6863.t1.exon3 | 19277868 | 19277956 |
| chr_2 | g6863 | g6863.t1 | cds | g6863.t1.CDS3 | 19277868 | 19277956 |
| chr_2 | g6863 | g6863.t1 | exon | g6863.t1.exon4 | 19278020 | 19279799 |
| chr_2 | g6863 | g6863.t1 | cds | g6863.t1.CDS4 | 19278020 | 19279799 |
| chr_2 | g6863 | g6863.t1 | exon | g6863.t1.exon5 | 19279855 | 19279943 |
| chr_2 | g6863 | g6863.t1 | cds | g6863.t1.CDS5 | 19279855 | 19279943 |
| chr_2 | g6863 | g6863.t1 | exon | g6863.t1.exon6 | 19280004 | 19280127 |
| chr_2 | g6863 | g6863.t1 | cds | g6863.t1.CDS6 | 19280004 | 19280127 |
| chr_2 | g6863 | g6863.t1 | exon | g6863.t1.exon7 | 19280240 | 19280293 |
| chr_2 | g6863 | g6863.t1 | cds | g6863.t1.CDS7 | 19280240 | 19280293 |
| chr_2 | g6863 | g6863.t1 | TSS | g6863.t1 | 19280392 | 19280392 |
Sequences
>g6863.t1 Gene=g6863 Length=2739
ATGAGTCGTAAGCAAGCACTAACTGATCATTCGTTGATTCCACGAGTTAAACAGTATTTA
GAAGAAAATGTTAACAAAACTTATGTCGATGTTGATGAAATGACTCAATCTTTAATGCAG
CGATATCAAGAATATAGTCGCCGTAAAATTACTCCTTTCAAAATTGCAGTAGAACAAGCT
TATAAAATCATTTTAAGTTCATATGGGATTGCTAGTAATCCTGGCTCAGATGCTGATGAT
GTTGGTTCAGATTTGGAAGTTATGGATGACTCGAACAGTAATCACATGAACAATGCTCTT
AACTCCTTATATGTAAAGAAGACAAATAATTCGGTAGTGACTTCGACGGAAAATAATGCA
GCAATTAGTATTGACATAAGCAGTGATGAAGAAGATAATCAAAAACAAAAATCGTCTACA
AATGACAAAGTTATTGTGACACGAATAGCAAAAAATGGTCAAAAAACTGCCTCATCAACT
GAAGAATTACAAAACATCATTAAAAATCGTCCAGGTCCTGCTTCACAAAAGAAACGTCGA
TTAGAAGAAATTGAAGAAAACGGACGTCAAGTACTAGCCACACTTCAACCAAATACACCT
ACAGTTACAACAACCTCTTCATCATCAGCTACAGGACAAAAACCAAAGAAATTCAGAAAA
GAAGTGTTTGCCAAAAAATCATCAGTAACATTTTCTGATATTGGTGGAATGGACAAAGCA
CTAAAAGATTTGTGTGAATTGATTATGCATATTAAACATCCAGAAATGTATCGTCATATT
GGTTTGGCTCCTCCTCGCGGTTTTCTTCTTCACGGACAACCTGGAAGTGGAAAGACATTG
CTCGCTCATGCCATTGCAGGACAACTTGATGTACTACTTGTTGAAGTACCGGCTACTGAA
CTTGTTGCTGGAGTATCTGGTGAATCAGAAGAACGAATTCGTGAAATTTTCGAGCAAGCA
GCTTCATTTGCACCGTGCGTTCTATTCATCGATGAAATAGATGCGATTTCATCAAATCGA
CAATCAGCTCAAAAAGACATGGAACGCCGAATTGTTTCACAATTGCTCTCGTCACTTGAT
AATTTATCAAAATTGAAATTTGGTGATCAAGTTCTTGTTATTGGTGCCACAAATCGTGCT
GAAGCGCTTGATCCAGCCCTACGTCGTGTTGGTCGCTTTGATCATGAAATTTCACTTGGC
ATTCCTGATCGTCAAGCACGAGCTCAAATTTTGCAAATCATTTCGCGTAACTTGAAACTT
GAAAGACCATTTAATTTCGATGAGATGGCTGCATTTACACCTGGATATGTTGGCGCTGAT
TTACTTGCATTAGCTACTCGTGCTGCATCAAATGCAATTAAACGAGGAATAACCAAGCGA
GAACAAGAATTTTTAAAAGAATCATTAAAAGAAGAAGAATCGGAGCCTGTTGATCTTGAA
CCCATTGTAAATCTAGATGATGATTTGTTAATGGAAGTCGATAGCGAGACAAATAAAAAT
AACGATGCTGAAAAATCTGAAGAAAATAAAAGTACAGAAAATGAAGAAAACAAAGGAGAA
TCTGAAACCAATGAAACTGAAAATATTGAAGAAAGAAAAGAAGCAGAGAGCACTACAAAT
GTACAGAAATCTTTACCCGAACAGATAAATGAAGAATCAATGCAAACAGAAATCAAAGAA
CCGGAAGATGAAAACAAAATTGAAGAAAATAAACCGACACAAACAGAAAAGGATGAAAAA
TGTCAGTTGACGTATGAGAATTTATTAAAGTGGCTTCAAAATGATATTCAGCCAATGAAT
AAAGAGGAACTTGAGAACCTTGCAATTTCACGTGACGATTTTTTGGAAGCATTGAAGCAA
GTACAACCATCTGCAAAGCGAGAAGGTTTCATCACTGTTCCAGATGTTACTTGGGATGAT
ATTGGTTCGCTACAAGATATTCGAAGTGAATTAAAATTGGCCGTCTTGGCGCCAGTGAAA
TTCCCTGAAAAATTAGAAAAACTCGGAATTAAATCTCCATCAGGTGTGCTACTTTGTGGA
CCACCAGGATGTGGTAAAACACTTCTTGCAAAAGCAGTTGCGAATGAAGCAGGAATTAAT
TTTATTTCAGTAAAAGGTCCAGAATTGTTAAACATGTACGTCGGTGAAAGTGAACGAGCA
GTCCGTCAATGCTTCCAACGTGCCCGCAATTCTGCACCATGTGTAATTTTCTTCGATGAA
TTTGATTCTTTGTGTCCAAAACGTTCCGATTCTGGTGATAACAATGCCAGTCAGCGTGTT
GTAAATCAACTTTTAACTGAAATGGATGGCATTGAAGAACGTAAAGGAGTGTTTTTGATG
GCAGCAACTAATCGTCCAGATATTGTAGATCCCGCTGTTTTACGTCCTGGTCGTTTAGAT
AAAATTCTTTATATTGGATTGCCAGAGGAAGAAGATCGAACGGACATATTGAAAGCTTTA
ACAAGAATAAAACCACCATTGGCTGACGATGTTGATATTGAAGAGATATCAGCTGCAACA
GAAGGTTTTACTGGTGCAGATCTTGATGGACTTATTCGACAAGCATCATTGCAAGCGTTA
AAGGAATCAATTGACAATTCGGAAGATCAGGAGATATTGATGGTTCATCAACGACATTTT
CTTGATGCATTAAAGAAAACAAAACCATCAGTAAATGAAGCAGATCGAAAAACTTATGAC
AAATTGAAAGAAAAATATGGAAATAAAACTGACTTCTAA
>g6863.t1 Gene=g6863 Length=912
MSRKQALTDHSLIPRVKQYLEENVNKTYVDVDEMTQSLMQRYQEYSRRKITPFKIAVEQA
YKIILSSYGIASNPGSDADDVGSDLEVMDDSNSNHMNNALNSLYVKKTNNSVVTSTENNA
AISIDISSDEEDNQKQKSSTNDKVIVTRIAKNGQKTASSTEELQNIIKNRPGPASQKKRR
LEEIEENGRQVLATLQPNTPTVTTTSSSSATGQKPKKFRKEVFAKKSSVTFSDIGGMDKA
LKDLCELIMHIKHPEMYRHIGLAPPRGFLLHGQPGSGKTLLAHAIAGQLDVLLVEVPATE
LVAGVSGESEERIREIFEQAASFAPCVLFIDEIDAISSNRQSAQKDMERRIVSQLLSSLD
NLSKLKFGDQVLVIGATNRAEALDPALRRVGRFDHEISLGIPDRQARAQILQIISRNLKL
ERPFNFDEMAAFTPGYVGADLLALATRAASNAIKRGITKREQEFLKESLKEEESEPVDLE
PIVNLDDDLLMEVDSETNKNNDAEKSEENKSTENEENKGESETNETENIEERKEAESTTN
VQKSLPEQINEESMQTEIKEPEDENKIEENKPTQTEKDEKCQLTYENLLKWLQNDIQPMN
KEELENLAISRDDFLEALKQVQPSAKREGFITVPDVTWDDIGSLQDIRSELKLAVLAPVK
FPEKLEKLGIKSPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYVGESERA
VRQCFQRARNSAPCVIFFDEFDSLCPKRSDSGDNNASQRVVNQLLTEMDGIEERKGVFLM
AATNRPDIVDPAVLRPGRLDKILYIGLPEEEDRTDILKALTRIKPPLADDVDIEEISAAT
EGFTGADLDGLIRQASLQALKESIDNSEDQEILMVHQRHFLDALKKTKPSVNEADRKTYD
KLKEKYGNKTDF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g6863.t1 | CDD | cd00009 | AAA | 262 | 400 | 4.28804E-22 |
| 15 | g6863.t1 | CDD | cd00009 | AAA | 671 | 807 | 4.62029E-28 |
| 12 | g6863.t1 | Gene3D | G3DSA:1.10.10.2010 | - | 1 | 71 | 7.7E-20 |
| 10 | g6863.t1 | Gene3D | G3DSA:3.40.50.300 | - | 216 | 401 | 2.4E-59 |
| 13 | g6863.t1 | Gene3D | G3DSA:1.10.8.60 | - | 402 | 486 | 7.9E-17 |
| 11 | g6863.t1 | Gene3D | G3DSA:3.40.50.300 | - | 634 | 900 | 9.5E-100 |
| 14 | g6863.t1 | Gene3D | G3DSA:1.10.8.60 | - | 808 | 887 | 9.5E-100 |
| 21 | g6863.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 495 | 538 | - |
| 23 | g6863.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 495 | 579 | - |
| 22 | g6863.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 553 | 579 | - |
| 6 | g6863.t1 | PANTHER | PTHR23077:SF156 | NUCLEAR VALOSIN-CONTAINING PROTEIN-LIKE | 42 | 906 | 1.1E-217 |
| 7 | g6863.t1 | PANTHER | PTHR23077 | AAA-FAMILY ATPASE | 42 | 906 | 1.1E-217 |
| 1 | g6863.t1 | Pfam | PF16725 | Nucleolin binding domain | 2 | 68 | 6.6E-25 |
| 2 | g6863.t1 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 269 | 399 | 2.0E-38 |
| 5 | g6863.t1 | Pfam | PF17862 | AAA+ lid domain | 425 | 461 | 1.7E-6 |
| 3 | g6863.t1 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 676 | 806 | 5.0E-47 |
| 4 | g6863.t1 | Pfam | PF17862 | AAA+ lid domain | 830 | 870 | 3.8E-11 |
| 17 | g6863.t1 | ProSitePatterns | PS00674 | AAA-protein family signature. | 371 | 389 | - |
| 18 | g6863.t1 | ProSitePatterns | PS00674 | AAA-protein family signature. | 777 | 795 | - |
| 20 | g6863.t1 | SMART | SM00382 | AAA_5 | 264 | 403 | 1.9E-19 |
| 19 | g6863.t1 | SMART | SM00382 | AAA_5 | 672 | 809 | 7.2E-22 |
| 8 | g6863.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 225 | 470 | 4.15E-58 |
| 9 | g6863.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 634 | 905 | 1.48E-70 |
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:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K14571 (ribosome biogenesis ATPase)
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.
