General information for g5752.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5752 is located on chr_2: 11665148..11666050 (+ 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 | g5752 | g5752.t12 | isoform | g5752.t12 | 11661518 | 11662870 |
| chr_2 | g5752 | g5752.t12 | exon | g5752.t12.exon1 | 11661518 | 11662101 |
| chr_2 | g5752 | g5752.t12 | cds | g5752.t12.CDS1 | 11661692 | 11662101 |
| chr_2 | g5752 | g5752.t12 | exon | g5752.t12.exon2 | 11662427 | 11662602 |
| chr_2 | g5752 | g5752.t12 | cds | g5752.t12.CDS2 | 11662427 | 11662602 |
| chr_2 | g5752 | g5752.t12 | exon | g5752.t12.exon3 | 11662780 | 11662870 |
| chr_2 | g5752 | g5752.t12 | cds | g5752.t12.CDS3 | 11662780 | 11662868 |
| chr_2 | g5752 | g5752.t12 | TTS | g5752.t12 | 11663128 | 11663128 |
| chr_2 | g5752 | g5752.t12 | TSS | g5752.t12 | NA | NA |
Sequences
>g5752.t12 Gene=g5752 Length=851
GATGAAGGTGAAGAAAATAAAGCAGAAAGTGAAGCAAAATCGGATTTTGCTCAAGTTTTA
TCAATTCGATTCACACCAAATCGACCTGGAACAGTTACTTGCAGAGCTAGAAATAAAATT
GATACTGCAAGAGCAACAGCATATGCAAAAATTGGTGACTTACCTGAACCTTTTATGATA
ACTGGCCTTAGAGATGACCATCAAATTGCACATGGTGATTTAGTTGAACTTGAATGTGGT
GCAATAATTTACAATTATTCAGATTCAATTCAATGGACAAAAGATGGAAATGTTTTAGAA
AATGGTGATGGAATTGAAATTTCTGACAGTCACACGGAATATTCATGGCGAAAAAGATTA
ATTTTAAATGCAATAAAACATGAACATGATGGTGAATACAACTGTGAAGTTAAAGAGAAA
AATTCTGAAGAAATAAAATCATTGCCTGTTAGCATTCGAGTAAATGATGCAATTGCTCCT
CAAATAACTCCAAATTTCAATGATTCGACAATCACAAAACCTCTTGGAGAGATGCTGAGA
CTTGAATGTTTTATTACTGGTCTTCCTACACCTAAATTATCATGGAAAAAAGATGGAGAA
ATTTTTCAAATTGATAAAAATGATTCAAGAGTTACAATGACAAATAATGATATGACTTTG
GCATTTTCGGTATTGAAACCTGAAGACAGTGGAGTGTATGAATGCATAGCAGAAAATCGA
ATTGCGACTGAAAGAAAACAAGTAGATGTTGTGATAACAACACCATCAACACCAGTCAAT
AAGGCAATTATCATTGGCGTCATTACAATTATTCTCGTACTTGTGTTGCTGTCACTTTAT
TTATGTCTAAA
>g5752.t12 Gene=g5752 Length=225
MITGLRDDHQIAHGDLVELECGAIIYNYSDSIQWTKDGNVLENGDGIEISDSHTEYSWRK
RLILNAIKHEHDGEYNCEVKEKNSEEIKSLPVSIRVNDAIAPQITPNFNDSTITKPLGEM
LRLECFITGLPTPKLSWKKDGEIFQIDKNDSRVTMTNNDMTLAFSVLKPEDSGVYECIAE
NRIATERKQVDVVITTPSTPVNKAIIIGVITIILVLVLLSLYLCL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5752.t12 | CDD | cd00096 | Ig | 17 | 80 | 6.23427E-5 |
| 11 | g5752.t12 | CDD | cd00096 | Ig | 121 | 190 | 1.03645E-13 |
| 6 | g5752.t12 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 2 | 95 | 6.9E-11 |
| 7 | g5752.t12 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 96 | 195 | 5.6E-19 |
| 3 | g5752.t12 | PANTHER | PTHR10075 | BASIGIN RELATED | 13 | 184 | 3.9E-21 |
| 1 | g5752.t12 | Pfam | PF13927 | Immunoglobulin domain | 7 | 80 | 1.2E-7 |
| 2 | g5752.t12 | Pfam | PF07679 | Immunoglobulin I-set domain | 116 | 192 | 4.3E-14 |
| 9 | g5752.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 203 | - |
| 10 | g5752.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 204 | 224 | - |
| 8 | g5752.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 225 | 225 | - |
| 19 | g5752.t12 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 1 | 93 | 10.136 |
| 18 | g5752.t12 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 102 | 195 | 14.002 |
| 14 | g5752.t12 | SMART | SM00409 | IG_3c | 6 | 97 | 3.5E-4 |
| 17 | g5752.t12 | SMART | SM00408 | igc2_5 | 12 | 84 | 9.3E-6 |
| 15 | g5752.t12 | SMART | SM00409 | IG_3c | 110 | 195 | 6.5E-6 |
| 16 | g5752.t12 | SMART | SM00408 | igc2_5 | 116 | 184 | 2.0E-10 |
| 4 | g5752.t12 | SUPERFAMILY | SSF48726 | Immunoglobulin | 6 | 89 | 1.17E-10 |
| 5 | g5752.t12 | SUPERFAMILY | SSF48726 | Immunoglobulin | 111 | 191 | 1.39E-17 |
| 13 | g5752.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 204 | 223 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5752/g5752.t12; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5752.t12.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0007155 | cell adhesion | BP |
| GO:0005515 | protein binding | MF |
| GO:0007411 | axon guidance | BP |
| GO:0005886 | plasma membrane | CC |
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.
