General information for g6.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative GILT-like protein 2.
Parent gene
- The parent gene g6 is located on chr_3: 60318..61382 (+ strand)
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 | g6 | g6.t1 | TSS | g6.t1 | 60179 | 60179 |
| chr_3 | g6 | g6.t1 | isoform | g6.t1 | 60318 | 61382 |
| chr_3 | g6 | g6.t1 | exon | g6.t1.exon1 | 60318 | 60518 |
| chr_3 | g6 | g6.t1 | cds | g6.t1.CDS1 | 60318 | 60518 |
| chr_3 | g6 | g6.t1 | exon | g6.t1.exon2 | 60679 | 60727 |
| chr_3 | g6 | g6.t1 | cds | g6.t1.CDS2 | 60679 | 60727 |
| chr_3 | g6 | g6.t1 | exon | g6.t1.exon3 | 60838 | 60956 |
| chr_3 | g6 | g6.t1 | cds | g6.t1.CDS3 | 60838 | 60956 |
| chr_3 | g6 | g6.t1 | exon | g6.t1.exon4 | 61071 | 61217 |
| chr_3 | g6 | g6.t1 | cds | g6.t1.CDS4 | 61071 | 61217 |
| chr_3 | g6 | g6.t1 | exon | g6.t1.exon5 | 61281 | 61382 |
| chr_3 | g6 | g6.t1 | cds | g6.t1.CDS5 | 61281 | 61382 |
| chr_3 | g6 | g6.t1 | TTS | g6.t1 | 61472 | 61472 |
Sequences
>g6.t1 Gene=g6 Length=618
ATGCTCTTATTACAATTTATATTGGTTTTGAGTTTATTTGGCTTATCAATAGCTGATACT
GATAAGAAACTTTCAGTTCGTATTTATTATGAAGCTCTATGTAGTGATAGTTTAAGATTT
TTTCGTAATCAGTTAAAACCCGTGTGGATCAAAAGAAGGAATTTTATCGATTTAAAATTG
ATACCGTTTGGAAAAGCTTTGTATAGATGGAACGAAAATGATTCTCAATGGAAATTCACA
TGTCAGCATGGTTTTCGAGAGTGTCAGCTCAACAAAATGCATGCTTGCATTCTAGAGCAC
TATGAATTCGACGAGGCCTTCAACATCATTTCATGTCTGATGCAATCCTTTCGCACCAGC
GTTGATAACTGCACGCCAGGTTTTGACATATCACCGTCTGTATTGAGTTGTTATAATGGC
ACAAATGTTCATGAAGGAATCCAACTTTTGAAAGCATATGGAGATGAAACAAACACAATA
GATTTAAATTTTGTGCCGAGTATTGAATTGGATAACCATTTTTCATATGAAGATAACTGG
ATATTGCTAGAAAATTTAGACATTGAAATATGCAAAAGATATAAAGAAAAGTTTGGAATT
GCTCTCAACGAATGCTAA
>g6.t1 Gene=g6 Length=205
MLLLQFILVLSLFGLSIADTDKKLSVRIYYEALCSDSLRFFRNQLKPVWIKRRNFIDLKL
IPFGKALYRWNENDSQWKFTCQHGFRECQLNKMHACILEHYEFDEAFNIISCLMQSFRTS
VDNCTPGFDISPSVLSCYNGTNVHEGIQLLKAYGDETNTIDLNFVPSIELDNHFSYEDNW
ILLENLDIEICKRYKEKFGIALNEC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g6.t1 | PANTHER | PTHR13234:SF59 | GAMMA-INTERFERON-INDUCIBLE LYSOSOMAL THIOL REDUCTASE-LIKE PROTEIN | 19 | 196 | 9.4E-41 |
| 3 | g6.t1 | PANTHER | PTHR13234 | GAMMA-INTERFERON INDUCIBLE LYSOSOMAL THIOL REDUCTASE GILT | 19 | 196 | 9.4E-41 |
| 1 | g6.t1 | Pfam | PF03227 | Gamma interferon inducible lysosomal thiol reductase (GILT) | 26 | 125 | 9.7E-31 |
| 6 | g6.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 7 | g6.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 8 | g6.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 13 | - |
| 9 | g6.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 5 | g6.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 205 | - |
| 4 | g6.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K08059 (interferon, gamma-inducible protein 30)
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. There were no conditions that were differentially expressed