General information for g14213.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Transcription factor glial cells missing.
Parent gene
- The parent gene g14213 is located on chr_1: 35449647..35451423 (- 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_1 | g14213 | g14213.t4 | isoform | g14213.t4 | 35449485 | 35451423 |
| chr_1 | g14213 | g14213.t4 | exon | g14213.t4.exon1 | 35449485 | 35449569 |
| chr_1 | g14213 | g14213.t4 | cds | g14213.t4.CDS1 | 35449486 | 35449569 |
| chr_1 | g14213 | g14213.t4 | exon | g14213.t4.exon2 | 35449643 | 35450288 |
| chr_1 | g14213 | g14213.t4 | cds | g14213.t4.CDS2 | 35449643 | 35450288 |
| chr_1 | g14213 | g14213.t4 | exon | g14213.t4.exon3 | 35451413 | 35451423 |
| chr_1 | g14213 | g14213.t4 | cds | g14213.t4.CDS3 | 35451413 | 35451423 |
| chr_1 | g14213 | g14213.t4 | TSS | g14213.t4 | 35451733 | 35451733 |
| chr_1 | g14213 | g14213.t4 | TTS | g14213.t4 | NA | NA |
Sequences
>g14213.t4 Gene=g14213 Length=742
ATGGTAATACACCACAATCACTTCTCATCCAATTTCTCATTAATAAAGCCATCAATGTCG
ATTTTACAATCAGCCACGGGAAATTTTCAAATTCAAAAGGCACATACGTCTGCGATTGAT
TGGGATATTAATGATACTAACGTGCCAGTTATAAATGAGAGCGAGTTAGATGAATTCCAA
GAATGGGCCGATGGACATTGTCGATATGTTTATAATTTAAATAATGAAGATGCTAAAAAG
CATATATCTGGTTGGGCTATGAGAAATACAAATAATCATAATGTGAATATTCTCAAAAAA
AGTTGTTTGGGTGTTCTTGTTTGTTCTGTTGGTTGTACATTGCCGAATGGTGCAAAAATT
AATTTACGACCAGCTATTTGTGACAAGGCGAGAAGAAAGCAGACTGGAAAACCATGTCCA
AATAGAAATTGTAATGGAAGGCTTGATATTCAACCATGCAGAGGACATTGCGGTTATCCT
GTCACTCACTTTTGGCGTCATACAAAATATGGAATTTTCTTTCAAGCAAAAGGTGTGCAT
GATCATCCAAAACCAGAACCAAAGAACTCAGAATCGAGAAGAACTCTTGGAATTAGTCGT
CGTAATTCAAAAGGATTAGCATTATTACTTGCTCGCGAAGCAGCAGTTGGTAATAAGATA
ATATCGTTGACTAATAACAAGCGTGAGAGACAAAAAACAGTTCGAAATAATGAGACAATT
CCTCCTCCGCCGCTAATTAAAG
>g14213.t4 Gene=g14213 Length=247
MVIHHNHFSSNFSLIKPSMSILQSATGNFQIQKAHTSAIDWDINDTNVPVINESELDEFQ
EWADGHCRYVYNLNNEDAKKHISGWAMRNTNNHNVNILKKSCLGVLVCSVGCTLPNGAKI
NLRPAICDKARRKQTGKPCPNRNCNGRLDIQPCRGHCGYPVTHFWRHTKYGIFFQAKGVH
DHPKPEPKNSESRRTLGISRRNSKGLALLLAREAAVGNKIISLTNNKRERQKTVRNNETI
PPPPLIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14213.t4 | Gene3D | G3DSA:3.30.1370.90 | - | 70 | 185 | 4.3E-66 |
| 7 | g14213.t4 | Gene3D | G3DSA:2.20.28.80 | - | 105 | 193 | 4.3E-66 |
| 5 | g14213.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 179 | 198 | - |
| 6 | g14213.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 227 | 247 | - |
| 2 | g14213.t4 | PANTHER | PTHR12414 | GLIAL CELLS MISSING RELATED/GLIDE | 25 | 233 | 2.6E-111 |
| 3 | g14213.t4 | PANTHER | PTHR12414:SF8 | TRANSCRIPTION FACTOR GLIAL CELLS MISSING-RELATED | 25 | 233 | 2.6E-111 |
| 1 | g14213.t4 | Pfam | PF03615 | GCM motif protein | 57 | 192 | 1.8E-75 |
| 9 | g14213.t4 | ProSiteProfiles | PS50807 | GCM domain profile. | 39 | 198 | 64.088 |
| 4 | g14213.t4 | SUPERFAMILY | SSF90073 | GCM domain | 39 | 194 | 3.92E-80 |
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:0003677 | DNA binding | MF |
| GO:0001228 | DNA-binding transcription activator activity, RNA polymerase II-specific | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K21598 (chorion-specific transcription factor GCM)
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.
