Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Ferritin subunit.

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_3 g2690 g2690.t17 TTS g2690.t17 19723354 19723354
chr_3 g2690 g2690.t17 isoform g2690.t17 19723426 19724509
chr_3 g2690 g2690.t17 exon g2690.t17.exon1 19723426 19723572
chr_3 g2690 g2690.t17 cds g2690.t17.CDS1 19723426 19723572
chr_3 g2690 g2690.t17 exon g2690.t17.exon2 19723635 19724140
chr_3 g2690 g2690.t17 cds g2690.t17.CDS2 19723635 19724140
chr_3 g2690 g2690.t17 exon g2690.t17.exon3 19724443 19724509
chr_3 g2690 g2690.t17 cds g2690.t17.CDS3 19724443 19724509
chr_3 g2690 g2690.t17 TSS g2690.t17 19724736 19724736

Sequences

>g2690.t17 Gene=g2690 Length=720
ATGAACAAGTTTGGAATTTTAGTGGCCTTTGCAGTTTGCTGTTTTGTGTCGGTATCAGCT
GATACATCTAAAGATCATTTCAATAATGTTGAATTTGTGGATATGAAGAGAAAGTGTATT
TTGGAAACAGAAGATCAAATTAAGAAAGAGATTACAGCATCACTTAAATATTTGAGTTTA
GCAGCATACTTTAGCCGTGATGATGTTAATCGTCCTGGATATGCAAAATTCTTCTTTGAT
GCTGCAAGCGAAGAACGTGAACATGCTAAGAAACTTATTGAATACTTGCAAATGCGTGGC
CGCTATTTCGATTTAGAAGACTCTGCCATTAGCAACATTAATATTGGATCATTAGTAAAG
GGATCAGAAAAGGCTGAACTCCTTAGCTTAGGCAGTGAATGGATGAAAGCACCAGAAGCA
TCAAAGAACAAGGAAGTCTCAGCTGGTCTTAATGCACTCAGAACAGCTTTGAAAATGGAA
GCCGTTGTCACTGGTAGCATTCGTAATTTAATTGCAACGTGCGAGGCTGAACAAGTCGAG
GGCAAGAAGAATGAAATTTTCAACGATTATCACTTTGCTGACTATCTTACTGGAGATTTC
CTCTCAGAACAATATCAAGGAAAGAGAGACATTGCTGGCAAGATTTCAACTCTCGGCAAA
ATGATCAGAGACAATGGTGCTGAGCTTGCAGATTACTTATTTGACAAATCATTGCAGTAA

>g2690.t17 Gene=g2690 Length=239
MNKFGILVAFAVCCFVSVSADTSKDHFNNVEFVDMKRKCILETEDQIKKEITASLKYLSL
AAYFSRDDVNRPGYAKFFFDAASEEREHAKKLIEYLQMRGRYFDLEDSAISNINIGSLVK
GSEKAELLSLGSEWMKAPEASKNKEVSAGLNALRTALKMEAVVTGSIRNLIATCEAEQVE
GKKNEIFNDYHFADYLTGDFLSEQYQGKRDIAGKISTLGKMIRDNGAELADYLFDKSLQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g2690.t17 CDD cd01056 Euk_Ferritin 45 236 4.03718E-45
7 g2690.t17 Gene3D G3DSA:1.20.1260.10 - 13 239 2.9E-55
2 g2690.t17 PANTHER PTHR11431:SF43 FERRITIN 23 238 5.2E-61
3 g2690.t17 PANTHER PTHR11431 FERRITIN 23 238 5.2E-61
1 g2690.t17 Pfam PF00210 Ferritin-like domain 45 218 9.2E-23
9 g2690.t17 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
10 g2690.t17 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
11 g2690.t17 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
12 g2690.t17 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
8 g2690.t17 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 239 -
15 g2690.t17 ProSiteProfiles PS50905 Ferritin-like diiron domain profile. 33 222 28.82
4 g2690.t17 SUPERFAMILY SSF47240 Ferritin-like 33 239 2.88E-42
6 g2690.t17 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -
14 g2690.t17 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 20 -
5 g2690.t17 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 20 -

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

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.

Raw TPM values