Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein Malvolio.

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_1 g9997 g9997.t4 TSS g9997.t4 6485973 6485973
chr_1 g9997 g9997.t4 isoform g9997.t4 6486145 6487903
chr_1 g9997 g9997.t4 exon g9997.t4.exon1 6486145 6486334
chr_1 g9997 g9997.t4 cds g9997.t4.CDS1 6486145 6486334
chr_1 g9997 g9997.t4 exon g9997.t4.exon2 6487168 6487453
chr_1 g9997 g9997.t4 cds g9997.t4.CDS2 6487168 6487453
chr_1 g9997 g9997.t4 exon g9997.t4.exon3 6487506 6487789
chr_1 g9997 g9997.t4 cds g9997.t4.CDS3 6487506 6487789
chr_1 g9997 g9997.t4 exon g9997.t4.exon4 6487870 6487903
chr_1 g9997 g9997.t4 cds g9997.t4.CDS4 6487870 6487901
chr_1 g9997 g9997.t4 TTS g9997.t4 NA NA

Sequences

>g9997.t4 Gene=g9997 Length=794
ATGGCTGAAAGTGATGAACGACATCACGATGAAAGTGATAGAACAGTTCCTTATATAAAT
TACGAGGACCATTTTGAAGATGAGGAGGATGATCTCGGTCCTGAATTCTCAACATATTTT
TCAGACCAAAAAGTTGAAATTCCAACATTTCCTGATGACGATAAAGTAATTTTGAATATT
TTAACTCATAACTTAAAATCAACGAATTTTCGTTCTTTAGCTTATCTCGATCCTGGAAAT
ATTGAAAGCGATTTACAATCTGGCTTTGTTGCAAAATATAAATTGCTATGGGTTTTGATG
TGGGCAACAATATTAGGCTTAGTAATGCAACGTTTGGCTATGAGAATTGGTGTCGTTACT
GGCCTTCATTTGGCTGAAATGTGCAATCGACAGTACAAGAAATTTCCTCGACTTATTTTA
TGGATTATGATAGAAATTGCTATAATTGGTAGTGATATGCAGGAAGTTATAGGAACAGCA
ATTGCTATATATTTGCTATCAATGAAAGCTGTTCCAATTTATATCGGAGTCATAATCACA
ATTTTTGACACATTTACTTTCCTTTTAATTGACAAATATGGACTTAGAAAATTAGAATTT
TTCTTTGGATTTCTTATCACTGTTATGGCAGTCACATTTGGATATGAATTTTTTGTTGTG
AAGCCAGAAATCACCGAAATAATCAAAGGAGCTGCAATTCCATGGTGTGCCGATTGTGAT
AGTAGAGCATTATTGCAAGCTGTGGGAATTGTTGGAGCTGTTATTATGCCACACAATCTT
TATCTTCATTCAGC

>g9997.t4 Gene=g9997 Length=264
MAESDERHHDESDRTVPYINYEDHFEDEEDDLGPEFSTYFSDQKVEIPTFPDDDKVILNI
LTHNLKSTNFRSLAYLDPGNIESDLQSGFVAKYKLLWVLMWATILGLVMQRLAMRIGVVT
GLHLAEMCNRQYKKFPRLILWIMIEIAIIGSDMQEVIGTAIAIYLLSMKAVPIYIGVIIT
IFDTFTFLLIDKYGLRKLEFFFGFLITVMAVTFGYEFFVVKPEITEIIKGAAIPWCADCD
SRALLQAVGIVGAVIMPHNLYLHS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g9997.t4 PANTHER PTHR11706:SF40 NATURAL RESISTANCE-ASSOCIATED MACROPHAGE PROTEIN 2 30 264 9.1E-103
3 g9997.t4 PANTHER PTHR11706 SOLUTE CARRIER PROTEIN FAMILY 11 MEMBER 30 264 9.1E-103
5 g9997.t4 PRINTS PR00447 Natural resistance-associated macrophage protein signature 140 166 1.9E-49
4 g9997.t4 PRINTS PR00447 Natural resistance-associated macrophage protein signature 170 189 1.9E-49
6 g9997.t4 PRINTS PR00447 Natural resistance-associated macrophage protein signature 195 216 1.9E-49
7 g9997.t4 PRINTS PR00447 Natural resistance-associated macrophage protein signature 247 264 1.9E-49
1 g9997.t4 Pfam PF01566 Natural resistance-associated macrophage protein 81 264 1.1E-64
16 g9997.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 94 -
22 g9997.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 95 118 -
14 g9997.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 119 137 -
19 g9997.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 138 165 -
18 g9997.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 166 170 -
21 g9997.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 171 190 -
13 g9997.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 191 201 -
23 g9997.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 202 220 -
17 g9997.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 221 242 -
20 g9997.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 243 262 -
15 g9997.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 263 264 -
12 g9997.t4 TIGRFAM TIGR01197 nramp: metal ion transporter, metal ion (Mn2+/Fe2+) transporter (Nramp) family 72 264 3.0E-86
8 g9997.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 95 114 -
10 g9997.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 142 164 -
9 g9997.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 171 190 -
11 g9997.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 200 219 -

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:0016020 membrane CC
GO:0046873 metal ion transmembrane transporter activity MF
GO:0030001 metal ion transport BP

KEGG

Orthology

Pathway

This gene does not belong to any 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