General information for g14440.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein patched.
Parent gene
- The parent gene g14440 is located on chr_4: 573349..574655 (- 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_4 | g14440 | g14440.t1 | isoform | g14440.t1 | 573349 | 574655 |
| chr_4 | g14440 | g14440.t1 | exon | g14440.t1.exon1 | 573349 | 573578 |
| chr_4 | g14440 | g14440.t1 | cds | g14440.t1.CDS1 | 573349 | 573578 |
| chr_4 | g14440 | g14440.t1 | exon | g14440.t1.exon2 | 574430 | 574655 |
| chr_4 | g14440 | g14440.t1 | cds | g14440.t1.CDS2 | 574430 | 574655 |
| chr_4 | g14440 | g14440.t1 | TSS | g14440.t1 | NA | NA |
| chr_4 | g14440 | g14440.t1 | TTS | g14440.t1 | NA | NA |
Sequences
>g14440.t1 Gene=g14440 Length=456
ATGGTCTATACTGGATTAGTTCTTTATCGTTTTGGTGATCCTGTTAATGGTCAATCAGGT
GTTGGAATGTTTGGAATTCTTTTATTATGTGCATCAACTGCTGCTGGTCTTGGTGTTTGT
TCACTGCTTGGATTAGCTTTTAATGTCTCAACAACTCAAGTTGTGCCATTAATTGCACTT
GGACTTGCTGTTGATCAAATTTTCATTCTTACTCATGGCTATGACACCTTCAAATTGCTT
GCTCAAACTGGACATGTTGACAATCCAATTGACAAATCACTCATCACTCACAATCGACTC
GTAAATTCTGATGGAATAATCAATCCAAAAGCTTTTTATAATTATCTCTCAGCATGGGCA
TGGAATGATGCTGCTTATGGTGCATCACAGAGCAATCTTCGACCATCACCAAGAATGTGG
ATTCATTCACCAAAAGACAAGCATATGAAATCCTAA
>g14440.t1 Gene=g14440 Length=151
MVYTGLVLYRFGDPVNGQSGVGMFGILLLCASTAAGLGVCSLLGLAFNVSTTQVVPLIAL
GLAVDQIFILTHGYDTFKLLAQTGHVDNPIDKSLITHNRLVNSDGIINPKAFYNYLSAWA
WNDAAYGASQSNLRPSPRMWIHSPKDKHMKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g14440.t1 | PANTHER | PTHR46022:SF1 | PROTEIN PATCHED | 1 | 76 | 1.9E-46 |
| 5 | g14440.t1 | PANTHER | PTHR46022 | PROTEIN PATCHED | 1 | 76 | 1.9E-46 |
| 2 | g14440.t1 | PANTHER | PTHR46022:SF1 | PROTEIN PATCHED | 77 | 149 | 1.9E-46 |
| 4 | g14440.t1 | PANTHER | PTHR46022 | PROTEIN PATCHED | 77 | 149 | 1.9E-46 |
| 1 | g14440.t1 | Pfam | PF12349 | Sterol-sensing domain of SREBP cleavage-activation | 16 | 77 | 5.9E-10 |
| 11 | g14440.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 13 | g14440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 47 | - |
| 9 | g14440.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 48 | 53 | - |
| 12 | g14440.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 54 | 74 | - |
| 10 | g14440.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 75 | 151 | - |
| 8 | g14440.t1 | ProSiteProfiles | PS50156 | Sterol-sensing domain (SSD) profile. | 1 | 74 | 14.634 |
| 7 | g14440.t1 | SUPERFAMILY | SSF82866 | Multidrug efflux transporter AcrB transmembrane domain | 23 | 75 | 2.22E-5 |
| 6 | g14440.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 42 | - |
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 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.
