General information for g16624.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16624 is located on chr_4: 10297319..10298622 (- 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 | g16624 | g16624.t6 | isoform | g16624.t6 | 10297319 | 10298622 |
| chr_4 | g16624 | g16624.t6 | exon | g16624.t6.exon1 | 10297319 | 10298101 |
| chr_4 | g16624 | g16624.t6 | cds | g16624.t6.CDS1 | 10297320 | 10298101 |
| chr_4 | g16624 | g16624.t6 | exon | g16624.t6.exon2 | 10298183 | 10298622 |
| chr_4 | g16624 | g16624.t6 | cds | g16624.t6.CDS2 | 10298183 | 10298492 |
| chr_4 | g16624 | g16624.t6 | TSS | g16624.t6 | NA | NA |
| chr_4 | g16624 | g16624.t6 | TTS | g16624.t6 | NA | NA |
Sequences
>g16624.t6 Gene=g16624 Length=1223
ATGAGTTATTTATTTCTATGTAAATTGCTCTTTTTGATAACCTTTTTTGATTTGGTTTCA
TCTGATGCAATTGATGAAGTTGGTGAGTTTAATTTTTTTTAATTCATCAAAATAATTTCT
CTCAATTTTTATGAAAGATTTTTGCAAAAATTCACCATGTGGACCAAATTCAAGTTGTGT
CAATTTTGAAAAATTTGCATCCTGCTATTGTCTTGATGGTTTTATTGGAAGTCCACCATA
CTGTCGACAACCTGAATGTTTTTATGATTCACAATGTCCATCAGATAGAGCTTGTATTAG
ATCCATTTGTACTGACGTTTGTGTAGCTCAAAAATGTCAACAAAATTCAAAATGTGTAGT
GAAAAATCATCGACCATTTTGTGAATGTCAAGCAGGATTTCTCAATAATGAAAATGATGG
AGAATGTGAAGAAAACTTGAATCTTCTTGATGGTTCCATAATAACAGAAAGATTTTACAA
CCAATATGAGGAAATCAAGAATTTTTGGGAAAAACATTCAAATGAAACTTTTGAAACATT
TTTTATTAAAAATGGAACAAAAATGAAGGAAGAAAATTTTGAACTGTCAATTAAATTCAA
AAATTTTAATGTTAAAGGTTTTGCAATAATGAATTCTGTTTGTAATGAATGGGACTTTTG
TTACAAGAAATTCAACATAAAATTTCTACCCATAAGAATAGGCGAAATTTTTCCTAATTT
AATATCATATACAGCATTTGCATTTGATATTTCTGAAGTTAGAAAGATAAATTTGGAAAA
TTTGACAAAATTAAAACTTTTGAGTTTGACATTGAGTGAGATTGAAAAAATTGAAGAAGA
TTCTTTTGATGATCTTTCTCAATTACAATTTTTACTGATAATAGCAAGTAAGCTTCAAAA
TATCAATAAAAAATGGTTCAAAAATACAAAGAAAATTGAATCCATTAATTTTAGTCACAA
TCGTATCGAAACTATCACAGATCCAAAAACATTTGCTAATTTGAGAAACTTAAAAGCATT
AAATTTTGAAGGCAATAACATGAAAAGTTTAGATTCAAAAATTTTCAATAATTTAAACAA
TTTGAAAACTCTCAAACTTAAAAATCTTGAATTGTCAATATTTGATGACAAAATTTTTGA
CAGTTTACCAAAACTTGAAGAATTTTCAATTGGATCATTTGATTTTCAAAATTTACCAAC
GATTTCACTGCAAAAATTGAAAA
>g16624.t6 Gene=g16624 Length=364
MKDFCKNSPCGPNSSCVNFEKFASCYCLDGFIGSPPYCRQPECFYDSQCPSDRACIRSIC
TDVCVAQKCQQNSKCVVKNHRPFCECQAGFLNNENDGECEENLNLLDGSIITERFYNQYE
EIKNFWEKHSNETFETFFIKNGTKMKEENFELSIKFKNFNVKGFAIMNSVCNEWDFCYKK
FNIKFLPIRIGEIFPNLISYTAFAFDISEVRKINLENLTKLKLLSLTLSEIEKIEEDSFD
DLSQLQFLLIIASKLQNINKKWFKNTKKIESINFSHNRIETITDPKTFANLRNLKALNFE
GNNMKSLDSKIFNNLNNLKTLKLKNLELSIFDDKIFDSLPKLEEFSIGSFDFQNLPTISL
QKLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g16624.t6 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 178 | 364 | 2.4E-25 |
| 3 | g16624.t6 | PANTHER | PTHR45842:SF11 | - | 216 | 326 | 4.2E-21 |
| 5 | g16624.t6 | PANTHER | PTHR45842 | SYNAPTIC ADHESION-LIKE MOLECULE SALM | 216 | 326 | 4.2E-21 |
| 2 | g16624.t6 | PANTHER | PTHR45842:SF11 | - | 254 | 362 | 4.2E-21 |
| 4 | g16624.t6 | PANTHER | PTHR45842 | SYNAPTIC ADHESION-LIKE MOLECULE SALM | 254 | 362 | 4.2E-21 |
| 1 | g16624.t6 | Pfam | PF13855 | Leucine rich repeat | 252 | 303 | 1.0E-9 |
| 13 | g16624.t6 | ProSitePatterns | PS01186 | EGF-like domain signature 2. | 25 | 38 | - |
| 12 | g16624.t6 | ProSitePatterns | PS01186 | EGF-like domain signature 2. | 84 | 99 | - |
| 15 | g16624.t6 | ProSiteProfiles | PS50026 | EGF-like domain profile. | 1 | 39 | 9.743 |
| 10 | g16624.t6 | SMART | SM00181 | egf_5 | 4 | 39 | 0.93 |
| 11 | g16624.t6 | SMART | SM00181 | egf_5 | 63 | 100 | 10.0 |
| 8 | g16624.t6 | SMART | SM00369 | LRR_typ_2 | 218 | 241 | 48.0 |
| 9 | g16624.t6 | SMART | SM00369 | LRR_typ_2 | 291 | 314 | 3.4 |
| 7 | g16624.t6 | SMART | SM00369 | LRR_typ_2 | 315 | 338 | 250.0 |
| 6 | g16624.t6 | SUPERFAMILY | SSF52058 | L domain-like | 182 | 358 | 2.99E-23 |
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