General information for g17252.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17252 is located on chr_4: 12949406..12950963 (- 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 | g17252 | g17252.t2 | TTS | g17252.t2 | 12947986 | 12947986 |
| chr_4 | g17252 | g17252.t2 | isoform | g17252.t2 | 12948180 | 12949067 |
| chr_4 | g17252 | g17252.t2 | exon | g17252.t2.exon1 | 12948180 | 12949067 |
| chr_4 | g17252 | g17252.t2 | cds | g17252.t2.CDS1 | 12948180 | 12948941 |
| chr_4 | g17252 | g17252.t2 | TSS | g17252.t2 | NA | NA |
Sequences
>g17252.t2 Gene=g17252 Length=888
CTCGATGGCAGCTTGTTTAGTTTTAACATACCAAAAAATTGTAATTTTGGAGAATGTGGA
TCTTTAAATTATCTCACTTTTTTCGTCTCTTCAAATACGAAAATTTTAATAACTGATGCA
GAAGTAATGTCAAAACATCAAAATGATAAAATTGATGGTTTTCGAATTTATTGTGATGAT
TGCGATAAAAAGGGAAAACAAGACATTTTTCATCTTCCAATCAATGTCATTAAAATTTTT
CCAAATTTACTTGCTTATTTTGCACATCATACAAAAGTTAAAAAATTAACTCGTGAAAAT
TTCAAGGAAATGAAGAAATTAGATCAATTGAATCTTCATACTAATGAAATTGAAGAAATT
GATGATGATGCATTTGATGATTTGATAAAACTTGAATATCTTAATCTGTCTGAAAATAAT
TTGAAAATTTTGAATCCAAGGATTTTTTTGGCTTTGAGAAATTTGAAATATTTTCATGTG
TCTAAAAATCAACTGACTTCATTAACTGCTCATGTTTTTGAAAATTTGGTTAATCTTAAA
CATTTTATACTCAACGAGAATTACATAAAATCTTTTCCATCTGGAATTTTTGATAGATTA
ACTAACCTTTCAATCATTGATACTCATAACAATCAATTTACAACTTTTGATGAAAATATT
TTCAAAAATAATTTCAAGCTTGAAGGAATTTATTTATGGAACAATAAAATAACAAAATTG
AGCTACAAATTATTTGAAAATAAAGAATTTTTAAAACGAGTTGATTTAAGTAGAAATATT
TGCATTAATTTACTTTTGTATGTCAATAATGATAAAGGTGAACACATCAATTTACCAGAA
GAAAAAAGAAATGAATTGAAAAATTTACTTATCGGAAAATGTTCATAA
>g17252.t2 Gene=g17252 Length=253
MSKHQNDKIDGFRIYCDDCDKKGKQDIFHLPINVIKIFPNLLAYFAHHTKVKKLTRENFK
EMKKLDQLNLHTNEIEEIDDDAFDDLIKLEYLNLSENNLKILNPRIFLALRNLKYFHVSK
NQLTSLTAHVFENLVNLKHFILNENYIKSFPSGIFDRLTNLSIIDTHNNQFTTFDENIFK
NNFKLEGIYLWNNKITKLSYKLFENKEFLKRVDLSRNICINLLLYVNNDKGEHINLPEEK
RNELKNLLIGKCS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g17252.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 14 | 121 | 0.000e+00 |
| 18 | g17252.t2 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 122 | 237 | 0.000e+00 |
| 5 | g17252.t2 | PANTHER | PTHR24366:SF122 | KEKKON-2 | 48 | 114 | 0.000e+00 |
| 9 | g17252.t2 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 48 | 114 | 0.000e+00 |
| 4 | g17252.t2 | PANTHER | PTHR24366:SF122 | KEKKON-2 | 89 | 169 | 0.000e+00 |
| 8 | g17252.t2 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 89 | 169 | 0.000e+00 |
| 6 | g17252.t2 | PANTHER | PTHR24366:SF122 | KEKKON-2 | 111 | 217 | 0.000e+00 |
| 10 | g17252.t2 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 111 | 217 | 0.000e+00 |
| 3 | g17252.t2 | PANTHER | PTHR24366:SF122 | KEKKON-2 | 151 | 250 | 0.000e+00 |
| 7 | g17252.t2 | PANTHER | PTHR24366 | IG(IMMUNOGLOBULIN) AND LRR(LEUCINE RICH REPEAT) DOMAINS | 151 | 250 | 0.000e+00 |
| 1 | g17252.t2 | Pfam | PF13855 | Leucine rich repeat | 64 | 123 | 0.000e+00 |
| 2 | g17252.t2 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 126 | 217 | 1.000e-07 |
| 22 | g17252.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 64 | 85 | 7.011e+00 |
| 20 | g17252.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 88 | 109 | 7.412e+00 |
| 25 | g17252.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 112 | 133 | 5.756e+00 |
| 21 | g17252.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 136 | 157 | 5.879e+00 |
| 24 | g17252.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 160 | 181 | 4.793e+00 |
| 23 | g17252.t2 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 184 | 205 | 5.987e+00 |
| 14 | g17252.t2 | SMART | SM00369 | LRR_typ_2 | 62 | 85 | 7.500e-01 |
| 17 | g17252.t2 | SMART | SM00369 | LRR_typ_2 | 86 | 109 | 3.600e-01 |
| 12 | g17252.t2 | SMART | SM00369 | LRR_typ_2 | 110 | 133 | 1.400e-01 |
| 16 | g17252.t2 | SMART | SM00369 | LRR_typ_2 | 134 | 157 | 4.200e-01 |
| 13 | g17252.t2 | SMART | SM00369 | LRR_typ_2 | 158 | 181 | 6.700e-01 |
| 15 | g17252.t2 | SMART | SM00369 | LRR_typ_2 | 184 | 205 | 2.100e+02 |
| 11 | g17252.t2 | SUPERFAMILY | SSF52058 | L domain-like | 26 | 222 | 0.000e+00 |
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