General information for g9952.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Soma ferritin.
Parent gene
- The parent gene g9952 is located on chr_1: 6175937..6176471 (+ 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 | g9952 | g9952.t1 | TSS | g9952.t1 | 6175762 | 6175762 |
| chr_1 | g9952 | g9952.t1 | isoform | g9952.t1 | 6175832 | 6176471 |
| chr_1 | g9952 | g9952.t1 | exon | g9952.t1.exon1 | 6175832 | 6175933 |
| chr_1 | g9952 | g9952.t1 | cds | g9952.t1.CDS1 | 6175832 | 6175933 |
| chr_1 | g9952 | g9952.t1 | exon | g9952.t1.exon2 | 6175994 | 6176218 |
| chr_1 | g9952 | g9952.t1 | cds | g9952.t1.CDS2 | 6175994 | 6176218 |
| chr_1 | g9952 | g9952.t1 | exon | g9952.t1.exon3 | 6176277 | 6176471 |
| chr_1 | g9952 | g9952.t1 | cds | g9952.t1.CDS3 | 6176277 | 6176471 |
| chr_1 | g9952 | g9952.t1 | TTS | g9952.t1 | 6176695 | 6176695 |
Sequences
>g9952.t1 Gene=g9952 Length=522
ATGGCAAGTTATGCTCGTCAAAATTTTCATAATGAGTGTGAAGCCGCTATTAATCGCCAG
ATAAATATGGAATTGTATGCATCTTACGTCTATCTTTCTATGGCGTATTTTTTTGATCGT
GATGATGTCGCACTTTCCGGTATGCATTGGTATTTCAAACAATGTTCAGATGAAGAACGT
GAACATGCGATGAAACTGATGAAGTATCTCAATAAACGTGGAGGACGCATCGTATTGCAA
GACATAAAAAATCCAGACACAGCTTTTGAATATACAGCAGTTGAAGCTATGGAGAAGGCT
TTACAATTAGAAAAAGATGTTAATCAGTCGCTTTTGGATGTTCATTCTATTGCAACTAGT
CACAATGATGTAAATTTCTGTGACTTTCTCGAAAGTGAATTTCTGAAAGAGCAAGTTGAT
GCAATCAAAGAAATTTCAGAGCACGTTACTAATCTCAAAAGATGTGGAGAAGGACTTGGT
GTTTATATGTTTGATAAACATTTAAACAAGCATAAAGACTAA
>g9952.t1 Gene=g9952 Length=173
MASYARQNFHNECEAAINRQINMELYASYVYLSMAYFFDRDDVALSGMHWYFKQCSDEER
EHAMKLMKYLNKRGGRIVLQDIKNPDTAFEYTAVEAMEKALQLEKDVNQSLLDVHSIATS
HNDVNFCDFLESEFLKEQVDAIKEISEHVTNLKRCGEGLGVYMFDKHLNKHKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9952.t1 | CDD | cd01056 | Euk_Ferritin | 10 | 167 | 2.53814E-83 |
| 5 | g9952.t1 | Gene3D | G3DSA:1.20.1260.10 | - | 1 | 172 | 2.1E-81 |
| 2 | g9952.t1 | PANTHER | PTHR11431 | FERRITIN | 2 | 171 | 1.2E-72 |
| 1 | g9952.t1 | Pfam | PF00210 | Ferritin-like domain | 15 | 154 | 1.0E-36 |
| 4 | g9952.t1 | ProSitePatterns | PS00204 | Ferritin iron-binding regions signature 2. | 123 | 143 | - |
| 6 | g9952.t1 | ProSiteProfiles | PS50905 | Ferritin-like diiron domain profile. | 7 | 156 | 46.667 |
| 3 | g9952.t1 | SUPERFAMILY | SSF47240 | Ferritin-like | 1 | 171 | 2.79E-70 |
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:0006879 | cellular iron ion homeostasis | BP |
| GO:0006826 | iron ion transport | BP |
| GO:0008199 | ferric iron binding | MF |
KEGG
Orthology
- This transcript has been annotated with K00522 (ferritin heavy chain)
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.
