General information for g6863.t3
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.t3 | TTS | g6863.t3 | 19278531 | 19278531 |
| chr_2 | g6863 | g6863.t3 | isoform | g6863.t3 | 19278761 | 19282366 |
| chr_2 | g6863 | g6863.t3 | exon | g6863.t3.exon1 | 19278761 | 19279799 |
| chr_2 | g6863 | g6863.t3 | cds | g6863.t3.CDS1 | 19278762 | 19279799 |
| chr_2 | g6863 | g6863.t3 | exon | g6863.t3.exon2 | 19279855 | 19279943 |
| chr_2 | g6863 | g6863.t3 | cds | g6863.t3.CDS2 | 19279855 | 19279943 |
| chr_2 | g6863 | g6863.t3 | exon | g6863.t3.exon3 | 19280004 | 19280127 |
| chr_2 | g6863 | g6863.t3 | cds | g6863.t3.CDS3 | 19280004 | 19280127 |
| chr_2 | g6863 | g6863.t3 | exon | g6863.t3.exon4 | 19280240 | 19280442 |
| chr_2 | g6863 | g6863.t3 | cds | g6863.t3.CDS4 | 19280240 | 19280293 |
| chr_2 | g6863 | g6863.t3 | exon | g6863.t3.exon5 | 19281811 | 19282366 |
| chr_2 | g6863 | g6863.t3 | TSS | g6863.t3 | 19282450 | 19282450 |
Sequences
>g6863.t3 Gene=g6863 Length=2011
TTAAAGTTCTTTCACATCACAAAAATTTTTGTTCATAAGTTCAGCAATTTCTAAAAATTC
TTTCTTACATGCTATGACTGACTTCATTAATGTCATGCAATCACTTTCTGCATCATGACA
ATTTTCTGGTAGTTTATCAAATAGTCTTCTATAAATTTCACACAATTTGTACTTTCCTTT
AGGCCATTTCTTGAACCCATTACTTTTTGAGCTTGATGGTTCACTTGGAAATAGTTCACG
ACTGACTTTTGAATTTCTTTTGCATACTTCACTCTCATCTTCTTTCTTTCGAGGCCTCTT
GTTTCCTTGAATTATTGTTTTTTTCGGCGTTGTTTCATTTAAAATCTGTAGATCTTTCAT
AGCTTCATCCTCATTTTTATTTTCTTTAACTTTGCATTTGTCTAAATTACAAAATTCCTT
TTCCAACTTTGTGATTGTTTCATAACTATAATCATCATCATCATCATCATTCACATAATT
TTCAAAGAAAGATTCAATTTCTATAATTTCCGCTTCGATCATGGCTAATTCCTCATCTTT
GATCTTTTCCCATGACAATTTTGCTATAAATATTGTTTGCCCTCGAATAAAGTGACAGTT
GAAGTTGTTGAAAAACAAAACAAAAAAAATCAGACCGAAAGAAAAAACGAAGCTTGATTT
GTTTATTGATTTTCAGTGGTAAAAAAACTTCTTTAAACAACTAAAATGAGTCGTAAGCAA
GCACTAACTGATCATTCGTTGATTCCACGAGTTAAACAGTATTTAGAAGAAAATGTTAAC
AAAACTTATGTCGATGTTGATGAAATGACTCAATCTTTAATGCAGCGATATCAAGAATAT
AGTCGCCGTAAAATTACTCCTTTCAAAATTGCAGTAGAACAAGCTTATAAAATCATTTTA
AGTTCATATGGGATTGCTAGTAATCCTGGCTCAGATGCTGATGATGTTGGTTCAGATTTG
GAAGTTATGGATGACTCGAACAGTAATCACATGAACAATGCTCTTAACTCCTTATATGTA
AAGAAGACAAATAATTCGGTAGTGACTTCGACGGAAAATAATGCAGCAATTAGTATTGAC
ATAAGCAGTGATGAAGAAGATAATCAAAAACAAAAATCGTCTACAAATGACAAAGTTATT
GTGACACGAATAGCAAAAAATGGTCAAAAAACTGCCTCATCAACTGAAGAATTACAAAAC
ATCATTAAAAATCGTCCAGGTCCTGCTTCACAAAAGAAACGTCGATTAGAAGAAATTGAA
GAAAACGGACGTCAAGTACTAGCCACACTTCAACCAAATACACCTACAGTTACAACAACC
TCTTCATCATCAGCTACAGGACAAAAACCAAAGAAATTCAGAAAAGAAGTGTTTGCCAAA
AAATCATCAGTAACATTTTCTGATATTGGTGGAATGGACAAAGCACTAAAAGATTTGTGT
GAATTGATTATGCATATTAAACATCCAGAAATGTATCGTCATATTGGTTTGGCTCCTCCT
CGCGGTTTTCTTCTTCACGGACAACCTGGAAGTGGAAAGACATTGCTCGCTCATGCCATT
GCAGGACAACTTGATGTACTACTTGTTGAAGTACCGGCTACTGAACTTGTTGCTGGAGTA
TCTGGTGAATCAGAAGAACGAATTCGTGAAATTTTCGAGCAAGCAGCTTCATTTGCACCG
TGCGTTCTATTCATCGATGAAATAGATGCGATTTCATCAAATCGACAATCAGCTCAAAAA
GACATGGAACGCCGAATTGTTTCACAATTGCTCTCGTCACTTGATAATTTATCAAAATTG
AAATTTGGTGATCAAGTTCTTGTTATTGGTGCCACAAATCGTGCTGAAGCGCTTGATCCA
GCCCTACGTCGTGTTGGTCGCTTTGATCATGAAATTTCACTTGGCATTCCTGATCGTCAA
GCACGAGCTCAAATTTTGCAAATCATTTCGCGTAACTTGAAACTTGAAAGACCATTTAAT
TTCGATGAGATGGCTGCATTTACACCTGGAT
>g6863.t3 Gene=g6863 Length=435
MSRKQALTDHSLIPRVKQYLEENVNKTYVDVDEMTQSLMQRYQEYSRRKITPFKIAVEQA
YKIILSSYGIASNPGSDADDVGSDLEVMDDSNSNHMNNALNSLYVKKTNNSVVTSTENNA
AISIDISSDEEDNQKQKSSTNDKVIVTRIAKNGQKTASSTEELQNIIKNRPGPASQKKRR
LEEIEENGRQVLATLQPNTPTVTTTSSSSATGQKPKKFRKEVFAKKSSVTFSDIGGMDKA
LKDLCELIMHIKHPEMYRHIGLAPPRGFLLHGQPGSGKTLLAHAIAGQLDVLLVEVPATE
LVAGVSGESEERIREIFEQAASFAPCVLFIDEIDAISSNRQSAQKDMERRIVSQLLSSLD
NLSKLKFGDQVLVIGATNRAEALDPALRRVGRFDHEISLGIPDRQARAQILQIISRNLKL
ERPFNFDEMAAFTPG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g6863.t3 | CDD | cd00009 | AAA | 262 | 400 | 1.43105E-22 |
| 9 | g6863.t3 | Gene3D | G3DSA:1.10.10.2010 | - | 1 | 71 | 2.8E-20 |
| 8 | g6863.t3 | Gene3D | G3DSA:3.40.50.300 | - | 208 | 427 | 5.1E-67 |
| 3 | g6863.t3 | PANTHER | PTHR23077:SF156 | NUCLEAR VALOSIN-CONTAINING PROTEIN-LIKE | 42 | 435 | 2.9E-83 |
| 4 | g6863.t3 | PANTHER | PTHR23077 | AAA-FAMILY ATPASE | 42 | 435 | 2.9E-83 |
| 1 | g6863.t3 | Pfam | PF16725 | Nucleolin binding domain | 2 | 68 | 2.4E-25 |
| 2 | g6863.t3 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 269 | 399 | 5.7E-39 |
| 7 | g6863.t3 | ProSitePatterns | PS00674 | AAA-protein family signature. | 371 | 389 | - |
| 6 | g6863.t3 | SMART | SM00382 | AAA_5 | 264 | 403 | 1.9E-19 |
| 5 | g6863.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 225 | 435 | 8.8E-53 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
