Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

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_4 g17450 g17450.t3 TSS g17450.t3 13571550 13571550
chr_4 g17450 g17450.t3 isoform g17450.t3 13571551 13573365
chr_4 g17450 g17450.t3 exon g17450.t3.exon1 13571551 13572325
chr_4 g17450 g17450.t3 cds g17450.t3.CDS1 13571562 13572325
chr_4 g17450 g17450.t3 exon g17450.t3.exon2 13572453 13572568
chr_4 g17450 g17450.t3 cds g17450.t3.CDS2 13572453 13572568
chr_4 g17450 g17450.t3 exon g17450.t3.exon3 13573196 13573365
chr_4 g17450 g17450.t3 cds g17450.t3.CDS3 13573196 13573365
chr_4 g17450 g17450.t3 TTS g17450.t3 13573549 13573549

Sequences

>g17450.t3 Gene=g17450 Length=1061
TTATAAACAAAATGTCAAACTTATGTCGTGTGTGTGTAACAGAAAGCTCTGACACAGTTG
AGCTCAATGAATATCGTGATGGCTTGCCAATTTCAGTCATCGTAATGATAATTCTGCCTG
TAAAGATCTATGAAGGCGAAGAATTGAAACTTCCAAAGAAAATTTGTGGAAAGTGCCTCG
AAATTATTTTAAACGCTTACAATTTGCGTTCTGTGAGTTTAAATAGTGAACAATTTTTAA
AATCAAATGAAATTGACATCAAAAATGAAGTTATTGAAAAACCAATTGAGATTACAGAAA
TAAAAGAAAAATTTACAAAATTTTTTGATGAGCCAGAAAAAGAACAAAATGAAGAAATTT
TTTCAGAACAAATTTCAATTGATTTGTATATGAAAAATAAAAAACGTTCAACATGTTGGC
AATATTTTGGTCGATTACTTAATGAATATCGAGATGAAATCGATACTGACTTTAATTACT
GCTCACTATGTTTAAAAGAGAAGAAAATTACAAAATACAAATGTTCAACAGCAACTTCTG
CAATGATTCAACATTTACAAGTAATTCATAGAATTGGCGGACAAGAAGCTGGCAGTAAAA
TGATGATAAATAAAGTTCAGGAAGAATACAAACAAAAGACAATAATAGCTGATAAAAATT
GCTCGGAAGCTTCAGAAACACAATGCAAAATTTGTGGAAAAAATTTTAGTAACCATCATA
CTTTGAATAAGCATTTACAAACTCATTCTGGACCATCTTTTTATTCATGTGATAGTTGTC
CAGCAAGATTCATTTACCTTGAAAATCTTCAACGGCATCAAAAAGTTCATGACACAAATC
ATTTTTCACAATACATTTGTGACATTTGTGGTAATGATTATGCTTCTAAAGATGATCTTC
ATAGACATTTACAAACGAACCACGTTGGTAATACATCCTATACTTGTAAATGTTGTTCAG
CTTCATTCAGACTTAAAATACAATTAAAAAATCATTACAAATCTCATCACAAAAATAGTT
ATTACACAGAGGCAGAAGGCAGTGGAATAAGTAATTTGTAG

>g17450.t3 Gene=g17450 Length=349
MSNLCRVCVTESSDTVELNEYRDGLPISVIVMIILPVKIYEGEELKLPKKICGKCLEIIL
NAYNLRSVSLNSEQFLKSNEIDIKNEVIEKPIEITEIKEKFTKFFDEPEKEQNEEIFSEQ
ISIDLYMKNKKRSTCWQYFGRLLNEYRDEIDTDFNYCSLCLKEKKITKYKCSTATSAMIQ
HLQVIHRIGGQEAGSKMMINKVQEEYKQKTIIADKNCSEASETQCKICGKNFSNHHTLNK
HLQTHSGPSFYSCDSCPARFIYLENLQRHQKVHDTNHFSQYICDICGNDYASKDDLHRHL
QTNHVGNTSYTCKCCSASFRLKIQLKNHYKSHHKNSYYTEAEGSGISNL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
22 g17450.t3 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 196 277 5.6E-14
23 g17450.t3 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 278 345 1.7E-10
5 g17450.t3 PANTHER PTHR24388 ZINC FINGER PROTEIN 74 336 1.0E-25
6 g17450.t3 PANTHER PTHR24388:SF50 GROWTH FACTOR-INDEPENDENT 1A TRANSCRIPTION REPRESSOR B-RELATED 74 336 1.0E-25
1 g17450.t3 Pfam PF07776 Zinc-finger associated domain (zf-AD) 4 77 4.2E-8
2 g17450.t3 Pfam PF13894 C2H2-type zinc finger 224 245 4.9E-4
3 g17450.t3 Pfam PF00096 Zinc finger, C2H2 type 251 273 0.004
4 g17450.t3 Pfam PF00096 Zinc finger, C2H2 type 281 304 0.0071
21 g17450.t3 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 225 245 -
19 g17450.t3 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 253 273 -
20 g17450.t3 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 283 304 -
28 g17450.t3 ProSiteProfiles PS50808 Zinc finger BED-type profile. 130 193 9.979
24 g17450.t3 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 223 250 12.217
26 g17450.t3 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 251 273 10.554
25 g17450.t3 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 281 309 10.928
27 g17450.t3 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 310 332 9.806
11 g17450.t3 SMART SM00868 zf_AD_2 4 79 3.0E-4
13 g17450.t3 SMART SM00614 bed5 130 189 0.002
18 g17450.t3 SMART SM00355 c2h2final6 155 186 270.0
12 g17450.t3 SMART SM00614 bed5 197 248 1.1
14 g17450.t3 SMART SM00355 c2h2final6 223 245 0.01
15 g17450.t3 SMART SM00355 c2h2final6 251 273 0.026
17 g17450.t3 SMART SM00355 c2h2final6 281 304 0.019
16 g17450.t3 SMART SM00355 c2h2final6 310 332 0.17
7 g17450.t3 SUPERFAMILY SSF57716 Glucocorticoid receptor-like (DNA-binding domain) 3 77 2.99E-7
9 g17450.t3 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 133 188 4.52E-5
8 g17450.t3 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 224 273 2.72E-12
10 g17450.t3 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 260 319 3.89E-9

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:0005634 nucleus CC
GO:0003677 DNA binding MF
GO:0008270 zinc ion binding MF

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.

Raw TPM values