General information for g6701.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative AFG3-like protein 1.
Parent gene
- The parent gene g6701 is located on chr_2: 18111888..18113220 (+ 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 | g6701 | g6701.t10 | TSS | g6701.t10 | 18110476 | 18110476 |
| chr_2 | g6701 | g6701.t10 | isoform | g6701.t10 | 18111237 | 18111816 |
| chr_2 | g6701 | g6701.t10 | exon | g6701.t10.exon1 | 18111237 | 18111622 |
| chr_2 | g6701 | g6701.t10 | cds | g6701.t10.CDS1 | 18111297 | 18111622 |
| chr_2 | g6701 | g6701.t10 | exon | g6701.t10.exon2 | 18111683 | 18111816 |
| chr_2 | g6701 | g6701.t10 | cds | g6701.t10.CDS2 | 18111683 | 18111815 |
| chr_2 | g6701 | g6701.t10 | TTS | g6701.t10 | NA | NA |
Sequences
>g6701.t10 Gene=g6701 Length=520
GGTCGTGGTGTTGTAGAGCGATTAGAAGTCATCAACAAAAAATGGGTTCGAGTTAAATTA
ATGCCTGGAAATGTTAGTGATGGTGTATTATGGTTTAATATTGGTAGCGTGGATTCTTTC
GAACGAAATTTAGAGAATGCACAAGCTGATCTCAATATAGAACCGGCAAATTATATTCCA
GTTATATATAAATCTGAAATTGAAGCCGCTAATTTAACAGGGCTTTTGCCGACTCTTCTC
ATTATTGGTTTCTTAATATATATGATGCGTCGTTCCGCTGATATGATGGGTGGAGGAAGA
GGCAGAAAAGGAGGTGGTCTTTTCGGCGGAGTAATGCAATCAACTGCAAGATTAATTAAT
CCTAATGAAATCGGAGTCAAATTTACTGATGTTGCTGGATGTGAAGAAGCTAAGATTGAG
ATCATGGAATTTGTAAATTTTTTGAAAAATCCTCAACAATACATTGACTTGGGTGCAAAA
ATTCCAAAAGGTGCTTTGTTAACCGGACCACCTGGCACAG
>g6701.t10 Gene=g6701 Length=153
MPGNVSDGVLWFNIGSVDSFERNLENAQADLNIEPANYIPVIYKSEIEAANLTGLLPTLL
IIGFLIYMMRRSADMMGGGRGRKGGGLFGGVMQSTARLINPNEIGVKFTDVAGCEEAKIE
IMEFVNFLKNPQQYIDLGAKIPKGALLTGPPGT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6701.t10 | Gene3D | G3DSA:3.40.1690.20 | - | 2 | 49 | 1.6E-14 |
| 5 | g6701.t10 | Gene3D | G3DSA:3.40.50.300 | - | 93 | 153 | 9.8E-12 |
| 1 | g6701.t10 | PANTHER | PTHR43655 | ATP-DEPENDENT PROTEASE | 3 | 153 | 2.0E-57 |
| 2 | g6701.t10 | PANTHER | PTHR43655:SF7 | AFG3-LIKE PROTEIN 1 | 3 | 153 | 2.0E-57 |
| 8 | g6701.t10 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 48 | - |
| 9 | g6701.t10 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 49 | 68 | - |
| 7 | g6701.t10 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 69 | 153 | - |
| 4 | g6701.t10 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 49 | 153 | 1.22E-9 |
| 3 | g6701.t10 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 47 | 69 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
