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_1 g9948 g9948.t6 TSS g9948.t6 6137508 6137508
chr_1 g9948 g9948.t6 isoform g9948.t6 6137533 6140365
chr_1 g9948 g9948.t6 exon g9948.t6.exon1 6137533 6138529
chr_1 g9948 g9948.t6 cds g9948.t6.CDS1 6137650 6138529
chr_1 g9948 g9948.t6 exon g9948.t6.exon2 6138602 6138721
chr_1 g9948 g9948.t6 cds g9948.t6.CDS2 6138602 6138721
chr_1 g9948 g9948.t6 exon g9948.t6.exon3 6138841 6139041
chr_1 g9948 g9948.t6 cds g9948.t6.CDS3 6138841 6139041
chr_1 g9948 g9948.t6 exon g9948.t6.exon4 6139590 6140365
chr_1 g9948 g9948.t6 cds g9948.t6.CDS4 6139590 6139675
chr_1 g9948 g9948.t6 TTS g9948.t6 NA NA

Sequences

>g9948.t6 Gene=g9948 Length=2094
AGTAATCGTGCTCATATAGAAAAAGTAATAAAATAAGTCGAATTAAGTGAAAGCACGAGA
ACATATTCAATTTTATTGCAGGAAGGAGATAGTTTGAAAATTAAAAAAAATTTAGAGATG
CCGACCTTATTGCAAGAAGATTACACTCACGAAAAAGATGTGATCATTGCAAAAGTTGCA
ACAGGTTTAGGACTTTTTTTAATTTCAACACTATGTGGTGTAATTCCATTTAAATTAGCA
AAAATATTCAAATGGTCAGAGCCAATAGATCCAAATTCTAAAAGTGATAAAAAATCAGCA
AAAGTAGTTTCAGTTCTATTATGTTTCGGAGGAGGTGTGCTATTGGCAACGACATTTTTA
CATTTATTACCAGACGTGAATGGTGAGATTGCAATTTTAAAAGCTGAAGGTCGCATTCCA
GAATGGCATATAGAATTAGGAGAATTACTTATGATGCTTGGATTCTTTTTAATATATTTG
ATTGAAGAAATTGTGCATCATTATCTACATCGTTATCAAGCAAATTTAAAGAAAAAATCA
CAAACTAGCATTGCAACGATGAAACCTGAGGAAGAAAGTTATGCAGAAGCATTAATGCGT
GGAATAACAGCTAGAAATAGTATACATCGACGTTTTTCAGATGTAAGTTGTATGAATCCC
GTAAGCTGCATCAATCCAGCACATTCCCATTCACGTCGAGGTTCTACACATGATCTTTCA
AATAATACAAAAACCTTATCAGCAACTGAGAAAGGTCAAATGGAAATGTCAGTTCACGAG
AAAAATCATACGCATAATCATGGTCATTCTCACGAAAACGGACATGGCCATGGTCACTCA
CATGCACTTCCTATACCACATACCGAAGATGAAGATATGCTCGTTTCATCACTACGTGGA
TTACTAATTGTCCTTGCACTTTCAATTCACGAATTATTTGAGGGCTTTGCTGTTGGATTA
CAAAAGGACAGCACAGGAGTGTATTATATGTTTGCAGCTGTAGCAGCTCATAAATTTGTT
ATTTCATTTTGTATTGGAGTTGAATTGATGGTACAACGAACAAAAATTTGGCTAGCATTC
GTTTACGTTTTTGTATACTCATTTGTGAGTGCATTTGGAATTCTTATCGGAGGAATTCTA
ACGACAGGTGCAATGGGTGATCGTCTACAAGTGCCTAATGTGATTCTTCAGGGTTTCGCT
ACCGGAACTCTATTATATGTGATTTTCTTTGAAGTTCTCTCCAAAGATCGTTCGGGAATG
CTTCCTTATTTGAGTGTATTTGCCGGATTTGTCATTATGACTGGCCTACAATATATCGCT
GGTGTAACTGAAAATCAAGGATTGACGGTTTTAATCCCAGACGATGTATTAACAACACTT
GATCAAAATCATGCACATGGGTAATTTTTTTATAAATCGAAAAATAGACATTGAGATAAA
CAGTAACGTGCACGATATCATAAAGGATCTTCAATTATCTGCACGTTTCACCACTTAACA
ACAAAGTTTATCATTTTGTCGATTTTCTCCTATAGGAGATAATTACGTGTTCCCCTCATG
CTGATATCAAACCTTTAAGTGAAGTTTAAAATGAAAGTGCCAATTTCAACATTTAAGTAC
GTTATTATTATAGAAACTCCTTTTTTCTTCCTTCAATTAAGTGATAAGATTTAAAGTCAT
TGTAAAAAGAAAAGCACATGTTATTTTATCATCATCAAAATTTTTGTACATTAATCAGGG
ACTTGAGTTAAAATAACTTTATAAAGTAGATGAGAACTTATAAAATCCACTAGGCGAAAA
ACATGAATGAATCATATTTATTTGTGTATTTTGAAATATATGATGGTTGTGATCGCTATT
ATGAATGTGTGTAGTTCATAAACATTTTCAATATTTCCTTATAGATTAAGTAGAGTGTAC
ATAAATAGTAAAATATTTTAGTAAATGTAAATTTTTTAGCTAATAAATCAAGACTTTATT
ATTTAAAAACTTGAATTTATCATAAAAAATTTTTTTAAATTCTTTCACCTCGGTTTATAG
ATAACTTTTTATTACAGCTCTAATTGAGTACCATATCATTCAGTTTATGATAAT

>g9948.t6 Gene=g9948 Length=428
MPTLLQEDYTHEKDVIIAKVATGLGLFLISTLCGVIPFKLAKIFKWSEPIDPNSKSDKKS
AKVVSVLLCFGGGVLLATTFLHLLPDVNGEIAILKAEGRIPEWHIELGELLMMLGFFLIY
LIEEIVHHYLHRYQANLKKKSQTSIATMKPEEESYAEALMRGITARNSIHRRFSDVSCMN
PVSCINPAHSHSRRGSTHDLSNNTKTLSATEKGQMEMSVHEKNHTHNHGHSHENGHGHGH
SHALPIPHTEDEDMLVSSLRGLLIVLALSIHELFEGFAVGLQKDSTGVYYMFAAVAAHKF
VISFCIGVELMVQRTKIWLAFVYVFVYSFVSAFGILIGGILTTGAMGDRLQVPNVILQGF
ATGTLLYVIFFEVLSKDRSGMLPYLSVFAGFVIMTGLQYIAGVTENQGLTVLIPDDVLTT
LDQNHAHG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g9948.t6 MobiDBLite mobidb-lite consensus disorder prediction 219 241 -
2 g9948.t6 PANTHER PTHR11040:SF137 ZINC TRANSPORTER ZIP1 12 398 3.7E-67
3 g9948.t6 PANTHER PTHR11040 ZINC/IRON TRANSPORTER 12 398 3.7E-67
1 g9948.t6 Pfam PF02535 ZIP Zinc transporter 19 397 5.1E-56
19 g9948.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
28 g9948.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 40 -
13 g9948.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 41 60 -
24 g9948.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
21 g9948.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 84 102 -
23 g9948.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 103 122 -
15 g9948.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 123 261 -
25 g9948.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 262 281 -
20 g9948.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 282 286 -
29 g9948.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 287 308 -
14 g9948.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 309 319 -
26 g9948.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 320 343 -
17 g9948.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 344 354 -
27 g9948.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 355 374 -
16 g9948.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 375 380 -
22 g9948.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 381 401 -
18 g9948.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 402 428 -
6 g9948.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
10 g9948.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 63 85 -
8 g9948.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 100 122 -
5 g9948.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 258 280 -
4 g9948.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 290 312 -
9 g9948.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 319 341 -
11 g9948.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 356 375 -
7 g9948.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 382 404 -

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:0055085 transmembrane transport BP
GO:0046873 metal ion transmembrane transporter activity MF
GO:0030001 metal ion transport BP

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