Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Hypoxia up-regulated protein 1 .

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 g2050 g2050.t2 isoform g2050.t2 14830328 14831431
chr_3 g2050 g2050.t2 exon g2050.t2.exon1 14830328 14830557
chr_3 g2050 g2050.t2 TSS g2050.t2 14830342 14830342
chr_3 g2050 g2050.t2 exon g2050.t2.exon2 14830623 14830744
chr_3 g2050 g2050.t2 cds g2050.t2.CDS1 14830634 14830744
chr_3 g2050 g2050.t2 exon g2050.t2.exon3 14830818 14831431
chr_3 g2050 g2050.t2 cds g2050.t2.CDS2 14830818 14831429
chr_3 g2050 g2050.t2 TTS g2050.t2 14832363 14832363

Sequences

>g2050.t2 Gene=g2050 Length=966
AAAGAGAGATTTCACTGTATTACTAGTAGAAAGTTGAAGTTAAAAAAGTTCTCAAATAAA
TACAAGATTTTATTAATTTACGTGTCTCATTAGCGTGTTTTTGGCTCAATACTCGTTTAG
CCATCACACAATTAAGTTGAATCTACTTGAATTTATATAATTTCAATTGATTTCTTTAAA
AAATCTTTGATACAAAAAAGAACACGTCATATTAATTCTAATCCTCAAAGGAGCTGCCAA
AATGCGAGTCTCCACTAGTTTAGTCGTAATTCTATCACTAGCAAGCATTCTCATACAAAA
TGTTTCTGGTGCTGCAGTTATGTCCATCGATATTGGTAGTGAATGGATGAAAGTTGGTGT
AGTTTCGCCTGGAATGTCTATGGAAATAGCACTTAATAAGGAATCAAAGAGAAAAACACC
TAGTGTTATTGCATTTAGAGAAAAATCTAGATTTTTCGGTGATGAAGCTATCACACTTGC
TGCTAGATTCCCATCAAGTAGCTATGGCTATCTGCTAGATCTTTTAGGAAAAGATATTTC
AAATCCAATTGTTGAATTATATAAAAAAAGATTTCCTTACTATGAGATTGTGCCTGATTC
AGTTCGCAATACTGTAAGTTTCAAAAACGGTGATGCAGTATATACAATTGAAGAGCTACT
TGCTCAATTACTTGAACGTGCACAATTATTCGCTCAAGATGCAACAGGACAACCGATTCA
AGAATGCGTAATAACAGTACCCGGCTTTTTCGGTCAAGCCGAACGTTTAGCCTTACTTTC
CGCTGCCAAATTAGCAAATCTCAAAGTACTACAATTGATGAATGATTACTCAGCCGTTGC
TCTCAATTACGGCATTTTCCAACGCAAGAATATAAATGAGACAGCACACTATGTTATGTT
CTATGACATGGGCGCAAGTAAAACCACAGTTTCAATTGTTAGTTATCAATTAGTAAAAGA
TAAAGT

>g2050.t2 Gene=g2050 Length=241
MRVSTSLVVILSLASILIQNVSGAAVMSIDIGSEWMKVGVVSPGMSMEIALNKESKRKTP
SVIAFREKSRFFGDEAITLAARFPSSSYGYLLDLLGKDISNPIVELYKKRFPYYEIVPDS
VRNTVSFKNGDAVYTIEELLAQLLERAQLFAQDATGQPIQECVITVPGFFGQAERLALLS
AAKLANLKVLQLMNDYSAVALNYGIFQRKNINETAHYVMFYDMGASKTTVSIVSYQLVKD
K

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g2050.t2 Gene3D G3DSA:3.30.420.40 - 17 239 4.8E-59
2 g2050.t2 PANTHER PTHR45639:SF3 HYPOXIA UP-REGULATED PROTEIN 1 12 237 5.5E-91
3 g2050.t2 PANTHER PTHR45639 HSC70CB, ISOFORM G-RELATED 12 237 5.5E-91
6 g2050.t2 PRINTS PR00301 70kDa heat shock protein signature 25 38 1.1E-6
5 g2050.t2 PRINTS PR00301 70kDa heat shock protein signature 54 66 1.1E-6
4 g2050.t2 PRINTS PR00301 70kDa heat shock protein signature 162 182 1.1E-6
1 g2050.t2 Pfam PF00012 Hsp70 protein 26 234 2.2E-38
12 g2050.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 23 -
13 g2050.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
14 g2050.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 18 -
15 g2050.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 19 23 -
11 g2050.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 24 241 -
7 g2050.t2 SUPERFAMILY SSF53067 Actin-like ATPase domain 26 206 2.81E-41
9 g2050.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 23 -
16 g2050.t2 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 24 -
8 g2050.t2 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 24 -
17 g2050.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 29 -

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:0005524 ATP binding MF
GO:0016887 ATP hydrolysis activity 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