General information for g16596.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16596 is located on chr_4: 10159449..10160183 (+ 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 | g16596 | g16596.t2 | TSS | g16596.t2 | 10157673 | 10157673 |
| chr_4 | g16596 | g16596.t2 | isoform | g16596.t2 | 10157702 | 10159047 |
| chr_4 | g16596 | g16596.t2 | exon | g16596.t2.exon1 | 10157702 | 10157704 |
| chr_4 | g16596 | g16596.t2 | exon | g16596.t2.exon2 | 10157845 | 10158098 |
| chr_4 | g16596 | g16596.t2 | cds | g16596.t2.CDS1 | 10157852 | 10158098 |
| chr_4 | g16596 | g16596.t2 | exon | g16596.t2.exon3 | 10158388 | 10159047 |
| chr_4 | g16596 | g16596.t2 | cds | g16596.t2.CDS2 | 10158388 | 10159046 |
| chr_4 | g16596 | g16596.t2 | TTS | g16596.t2 | NA | NA |
Sequences
>g16596.t2 Gene=g16596 Length=917
GAGGTTCAAAATGAAACTTTTACTGTTTCTAAATTTCTTCATTATTGCTACTTTAGCAGA
CGTTCATTCACCTGAATGCTTTATTGACTCTCAATGTCCAGATGACAAAGGATGCTTTAA
CCAACTTTGTCTAGATTTCTGTTCAGCACAAAAATGTCCAGAAAATTCTAAATGTGTCAT
GAAAAATCATCGACCAGTTTGTGAATGTCAAGTTGGATTTATTGATGATGGATTTGGAGA
TTGTGACGAAAATTCAAACATAATTTCTGGCACAATAAAGAATGAAAGCTGTTGCTCAAT
CAAGGATCCACTCAAACAAATTCATTCAATTACATTCGTCACTTTTAATGCTGAAGAAAG
TATAAAAATTCAGGAAGAAAATTTCGAAATTGCATTAACTCATAAGAGCGATGATGTTGA
AAGTTTCAAATTAATTATTCCAAAATGTGTACCTTGGGAAAATTTCTGTTATGAAGAAAA
TGTAAAATTTCTACCCGTAAAAGTTAATCAAATATTTCCAAATATTGCTACTTATGTTGT
CAATAATGCTGCAGTTGAAAAAGTTCAAAAGAAAAATTTCGAAAGACTTGGAAGTTTAGA
AATTCTTGATTTATCATCAAATAGAATTAATAAAATCGATTTAAATGCGTTTGATGATTT
GGCACGTTTGAATTTCCTTGTTCTAAAAAATAATAAAATCAACACAATTTCACGACGATG
GTTTAAGAATCTCATACAAATTAACTTAATTGATCTAAGTTCAAATCCACTTTCATTTCC
TTATTTGAATGTTTTCAAAGGTTCACCAGTGAGACAACTTTCACTTTTTTCAATCGGTTT
GAATAATTTCAATCCAAAATTGTTTGAAAATGCCAAAAATTTAAATGCTCTTGATATCGG
TGCAAATGAACTTAAAA
>g16596.t2 Gene=g16596 Length=302
MKLLLFLNFFIIATLADVHSPECFIDSQCPDDKGCFNQLCLDFCSAQKCPENSKCVMKNH
RPVCECQVGFIDDGFGDCDENSNIISGTIKNESCCSIKDPLKQIHSITFVTFNAEESIKI
QEENFEIALTHKSDDVESFKLIIPKCVPWENFCYEENVKFLPVKVNQIFPNIATYVVNNA
AVEKVQKKNFERLGSLEILDLSSNRINKIDLNAFDDLARLNFLVLKNNKINTISRRWFKN
LIQINLIDLSSNPLSFPYLNVFKGSPVRQLSLFSIGLNNFNPKLFENAKNLNALDIGANE
LK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g16596.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 145 | 302 | 3.6E-20 |
| 2 | g16596.t2 | PANTHER | PTHR45836:SF20 | CHONDROADHERIN | 153 | 301 | 1.7E-17 |
| 3 | g16596.t2 | PANTHER | PTHR45836 | SLIT HOMOLOG | 153 | 301 | 1.7E-17 |
| 1 | g16596.t2 | Pfam | PF13855 | Leucine rich repeat | 177 | 230 | 2.4E-11 |
| 8 | g16596.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 9 | g16596.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 10 | g16596.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 11 | g16596.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 16 | - |
| 7 | g16596.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 302 | - |
| 16 | g16596.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 195 | 216 | 7.62 |
| 14 | g16596.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 219 | 240 | 5.356 |
| 15 | g16596.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 290 | 302 | 4.67 |
| 13 | g16596.t2 | SMART | SM00369 | LRR_typ_2 | 193 | 216 | 0.0068 |
| 12 | g16596.t2 | SMART | SM00369 | LRR_typ_2 | 217 | 240 | 8.5 |
| 4 | g16596.t2 | SUPERFAMILY | SSF52058 | L domain-like | 176 | 301 | 8.26E-17 |
| 5 | g16596.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
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:0005515 | protein binding | 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. There were no conditions that were differentially expressed