General information for g567.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g567 is located on chr_3: 4170778..4171803 (+ 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_3 | g567 | g567.t7 | TSS | g567.t7 | 4167939 | 4167939 |
| chr_3 | g567 | g567.t7 | isoform | g567.t7 | 4168457 | 4169428 |
| chr_3 | g567 | g567.t7 | exon | g567.t7.exon1 | 4168457 | 4168676 |
| chr_3 | g567 | g567.t7 | cds | g567.t7.CDS1 | 4168571 | 4168676 |
| chr_3 | g567 | g567.t7 | exon | g567.t7.exon2 | 4168784 | 4169428 |
| chr_3 | g567 | g567.t7 | cds | g567.t7.CDS2 | 4168784 | 4169427 |
| chr_3 | g567 | g567.t7 | TTS | g567.t7 | NA | NA |
Sequences
>g567.t7 Gene=g567 Length=865
AAAGACGTTGAAGGAGCAAATTGTTCAGTGACAGAGACAATTGGAAATTATACATTTAAT
TTTACTGAACTTAGTAGTGACTTTGGATATCACATCGATGGAAATGCAGAAGATATGGGA
AAATATAGTTTCAATCTTTGTAAACCGCTATCAAGAAAATGCAACAACCAAACAGCTGCA
GCTTGTCTGAAAAATGTTGACGGCAAGGAAATCATAATAGGATACGACAGCACTTCAAAA
TTATTTTGGAATGACGGTCAAATAAGATTCAGTTTCATTGGCGAAAAGTGTAATAAACTT
GAAAACTATACTTTAAATGTGATACTTCAATGCGATTATGCTGAAACGAAAAATGATTTT
CTTGGCGTGTTTCATGATGATAGCGAATGTGAAGTTACAATACTTATGCGAACGCCAAAG
GCGTGTTTAGAAATTCCTGAAAATGTCAAAAATGCAAAGATGTACGTAACTAGTCCCAAT
GGCAAGATTTTGAATTTCAACGCTTTAAAAAGTTCAAACCATATTATCAATGGTCCAAAT
GATGGAACTTTCATAATTGGTTTTCCAATTACTTACGAACATGGAATTTTATGTGAAGCT
GGCTCATCTATTTGTTATGTCGACAAGAATGAGACTGATTTATCAAAGAAATATACCAAT
ATGGGAACGATGACATCTAATATTGAATTTGAAAATGATCGACCAGTCATTAAATTTACA
AGCAAAGAAAAATGCAATAATAACACATTGGGCTCATCAAAAATTGTTTTCGAATGTGAT
CGATTCAAAAAAGAAGGTACACCTAAATTTAAAGGTGTAAAAGATTGTGTAAGCAATTTT
GTTTGGGAAACATCACTTGCATGTT
>g567.t7 Gene=g567 Length=250
MGKYSFNLCKPLSRKCNNQTAAACLKNVDGKEIIIGYDSTSKLFWNDGQIRFSFIGEKCN
KLENYTLNVILQCDYAETKNDFLGVFHDDSECEVTILMRTPKACLEIPENVKNAKMYVTS
PNGKILNFNALKSSNHIINGPNDGTFIIGFPITYEHGILCEAGSSICYVDKNETDLSKKY
TNMGTMTSNIEFENDRPVIKFTSKEKCNNNTLGSSKIVFECDRFKKEGTPKFKGVKDCVS
NFVWETSLAC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g567.t7 | Gene3D | G3DSA:2.70.130.10 | - | 2 | 107 | 0.0e+00 |
| 7 | g567.t7 | Gene3D | G3DSA:2.70.130.10 | - | 117 | 250 | 0.0e+00 |
| 1 | g567.t7 | PANTHER | PTHR15071 | MANNOSE-6-PHOSPHATE RECEPTOR FAMILY MEMBER | 3 | 250 | 0.0e+00 |
| 2 | g567.t7 | PANTHER | PTHR15071:SF17 | CATION-INDEPENDENT MANNOSE-6-PHOSPHATE RECEPTOR | 3 | 250 | 0.0e+00 |
| 5 | g567.t7 | SMART | SM01404 | CIMR_2 | 62 | 208 | 2.8e-05 |
| 4 | g567.t7 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 3 | 104 | 0.0e+00 |
| 3 | g567.t7 | SUPERFAMILY | SSF50911 | Mannose 6-phosphate receptor domain | 90 | 250 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g567/g567.t7; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g567.t7.fa.iupred3.txt does not exist
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.
