General information for g7169.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Tetratricopeptide repeat protein 37.
Parent gene
- The parent gene g7169 is located on chr_2: 21773407..21774651 (+ 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 | g7169 | g7169.t3 | TSS | g7169.t3 | 21769445 | 21769445 |
| chr_2 | g7169 | g7169.t3 | isoform | g7169.t3 | 21769468 | 21771071 |
| chr_2 | g7169 | g7169.t3 | exon | g7169.t3.exon1 | 21769468 | 21769557 |
| chr_2 | g7169 | g7169.t3 | cds | g7169.t3.CDS1 | 21769468 | 21769557 |
| chr_2 | g7169 | g7169.t3 | exon | g7169.t3.exon2 | 21769620 | 21771071 |
| chr_2 | g7169 | g7169.t3 | cds | g7169.t3.CDS2 | 21769620 | 21771071 |
| chr_2 | g7169 | g7169.t3 | TTS | g7169.t3 | NA | NA |
Sequences
>g7169.t3 Gene=g7169 Length=1542
ATGAGCTCAAAAGAAGTTAAAAATTTGCTAAAAGAAGCTCGAGAGGCAATAAAAAATAAA
GAATTTCAATTAGCAATTAAAAAATGCAAGGAAGCCTTAACTCTCGATAAACAAAACGGT
ATGACTTATATACTTTTGGGTGCAGCATATACAGAATCAGATAAATTAGAGGCTGTAAAG
TGCTTGCGAAAAGCAATGGATATTTCAAGTGATTACAAACTTTTAGCCTTACAAGGACTT
TCAAATTGTGTTTCACCTAAAGAATTGCCTGATGTGCTTGAAGAGCTTTTAAGTCTTACT
CCAGAAAAATATGCAGATTACTACTTTAAACTTAACAATTTAGTAATGAATGAGCAAATT
TTAGATCATACTAAAATAATTACAATTTTTTGCGCTGAAATCAAAAATGAAAATGAAAGA
AAGTTCTTAGCATTGAAATATTTACTCAATATCTTTATGAAAAACAGAGAATTGGCTTTC
GAGAAATTCAGTGACGAATTTTTAGAGTGTCTAGAAGTTGGAATCAAAGATAAAAACCAT
GTTTATCACGTAGATATTTATCAATCCTATTTTAAAGTTCTTCATCAAAAGCAACGATTC
ATTGAATTAGTAAAAGCAGCAGAGGAAATGGTAGAAATGTATCCCAGTAGTGTTATTCCT
CTTGAATGGATTTGCAAAATGTATATCGAAAATGAGAATAATCAATCGTTTCAAATCAAT
GAGTGTTTGAAATCAAATTTTGGTATATATGTTGAACGTTTATTAGAAATCAATCCCAAC
TCTGTTCTTGGTTTAAGTGCAAGTGCTTTAATTAAATTTTCAATAGGAGATATGGCTAGT
TCACGAGATATTTTATTGAAAATCAATCAATTACAACCTAATTGGTCAACATGTTTGAAA
AAATTAGCAATCACTCATCAAAAACTAAGAGCTTATCTACTTGCAGAGCTAGTTTATCGA
AAATTAAAGAATGTTGACTTAGAATTAGCAGAAATGCTTATAGAGCAAATGATTGAAGGA
AAAGTTAAGGAGGGAATCATTTTGTGTGAAAAGATGATGAAAAATGAACCAAAGGCACTA
GAGTTGATTGCAAAAGGAAATATTTATTTAGGGAGTTTCAGTGAAGCAGAAAGTTTTATG
GAAAACAATAAACTTTTAAAAGCAACAGCTCATCGTATTAAGGGAGAGTATGAGCTTGCT
ATAGAAACATTAAAGGATATTGAAAATCATGATGCATTCCTTGAAATTGGTAGAAACCTT
TTTGAATTACAAAAGTACGAAGAATCATTAGTAAATATTCTCAAAGCTACTAAATTGGAT
CCGAATAATTCAGAATGTTTTTATTGGCTTGGTAAAATTTATATGATTTCTAACGATGAG
CATCGAAGTCAAAAATGCCTTGAAAAATGCTTACATCTCAATGCACAGAATGAGAAAGCT
ATTACAATTCTTTCATCTATCTATCGTAAAAACAAGGAATGGGATAATAATTTACAGATT
TTAGAAAACTCTGTGCAGTCTGTGAGTGGTGTTTATCAGAAA
>g7169.t3 Gene=g7169 Length=514
MSSKEVKNLLKEAREAIKNKEFQLAIKKCKEALTLDKQNGMTYILLGAAYTESDKLEAVK
CLRKAMDISSDYKLLALQGLSNCVSPKELPDVLEELLSLTPEKYADYYFKLNNLVMNEQI
LDHTKIITIFCAEIKNENERKFLALKYLLNIFMKNRELAFEKFSDEFLECLEVGIKDKNH
VYHVDIYQSYFKVLHQKQRFIELVKAAEEMVEMYPSSVIPLEWICKMYIENENNQSFQIN
ECLKSNFGIYVERLLEINPNSVLGLSASALIKFSIGDMASSRDILLKINQLQPNWSTCLK
KLAITHQKLRAYLLAELVYRKLKNVDLELAEMLIEQMIEGKVKEGIILCEKMMKNEPKAL
ELIAKGNIYLGSFSEAESFMENNKLLKATAHRIKGEYELAIETLKDIENHDAFLEIGRNL
FELQKYEESLVNILKATKLDPNNSECFYWLGKIYMISNDEHRSQKCLEKCLHLNAQNEKA
ITILSSIYRKNKEWDNNLQILENSVQSVSGVYQK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g7169.t3 | Coils | Coil | Coil | 3 | 23 | - |
| 10 | g7169.t3 | Gene3D | G3DSA:1.25.40.10 | - | 1 | 238 | 2.2E-11 |
| 11 | g7169.t3 | Gene3D | G3DSA:1.25.40.10 | - | 240 | 385 | 3.3E-7 |
| 12 | g7169.t3 | Gene3D | G3DSA:1.25.40.10 | - | 386 | 507 | 1.9E-15 |
| 2 | g7169.t3 | PANTHER | PTHR15704 | SUPERKILLER 3 PROTEIN-RELATED | 3 | 506 | 1.7E-50 |
| 3 | g7169.t3 | PANTHER | PTHR15704:SF7 | TETRATRICOPEPTIDE REPEAT PROTEIN 37 | 3 | 506 | 1.7E-50 |
| 1 | g7169.t3 | Pfam | PF13414 | TPR repeat | 417 | 455 | 4.1E-7 |
| 18 | g7169.t3 | ProSiteProfiles | PS50293 | TPR repeat region circular profile. | 1 | 72 | 8.25 |
| 14 | g7169.t3 | ProSiteProfiles | PS50005 | TPR repeat profile. | 6 | 39 | 5.723 |
| 17 | g7169.t3 | ProSiteProfiles | PS50005 | TPR repeat profile. | 40 | 72 | 6.077 |
| 16 | g7169.t3 | ProSiteProfiles | PS50005 | TPR repeat profile. | 410 | 443 | 9.558 |
| 19 | g7169.t3 | ProSiteProfiles | PS50293 | TPR repeat region circular profile. | 410 | 511 | 15.829 |
| 15 | g7169.t3 | ProSiteProfiles | PS50005 | TPR repeat profile. | 444 | 477 | 7.287 |
| 6 | g7169.t3 | SMART | SM00028 | tpr_5 | 6 | 39 | 22.0 |
| 9 | g7169.t3 | SMART | SM00028 | tpr_5 | 40 | 72 | 82.0 |
| 8 | g7169.t3 | SMART | SM00028 | tpr_5 | 410 | 443 | 0.071 |
| 7 | g7169.t3 | SMART | SM00028 | tpr_5 | 444 | 477 | 27.0 |
| 5 | g7169.t3 | SUPERFAMILY | SSF48452 | TPR-like | 17 | 321 | 2.11E-8 |
| 4 | g7169.t3 | SUPERFAMILY | SSF48452 | TPR-like | 386 | 503 | 9.49E-18 |
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:0006401 | RNA catabolic process | BP |
| GO:0005515 | protein binding | MF |
| GO:0055087 | Ski complex | 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. There were no conditions that were differentially expressed