General information for g13346.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13346 is located on chr_1: 29391016..29391553 (+ 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_1 | g13346 | g13346.t7 | isoform | g13346.t7 | 29389347 | 29391553 |
| chr_1 | g13346 | g13346.t7 | exon | g13346.t7.exon1 | 29389347 | 29389854 |
| chr_1 | g13346 | g13346.t7 | cds | g13346.t7.CDS1 | 29389427 | 29389854 |
| chr_1 | g13346 | g13346.t7 | exon | g13346.t7.exon2 | 29389914 | 29390727 |
| chr_1 | g13346 | g13346.t7 | cds | g13346.t7.CDS2 | 29389914 | 29390727 |
| chr_1 | g13346 | g13346.t7 | exon | g13346.t7.exon3 | 29390789 | 29390940 |
| chr_1 | g13346 | g13346.t7 | cds | g13346.t7.CDS3 | 29390789 | 29390940 |
| chr_1 | g13346 | g13346.t7 | exon | g13346.t7.exon4 | 29391014 | 29391553 |
| chr_1 | g13346 | g13346.t7 | cds | g13346.t7.CDS4 | 29391014 | 29391020 |
| chr_1 | g13346 | g13346.t7 | TTS | g13346.t7 | 29391550 | 29391550 |
| chr_1 | g13346 | g13346.t7 | TSS | g13346.t7 | NA | NA |
Sequences
>g13346.t7 Gene=g13346 Length=2014
AATTAATTTTGACGGTTCTGCATAGAAATGGTTTGGGACTAGATGAATTCCTTGGTCAAA
TTACGCTTCCACTTAATGAAATGGATCACTTTGATCGACCAAGAAGTCGATGGTATAAGT
TACAGAGTAAACCAGGTCAAGAGAAAAAAGACAAAGATCGTGGTGAATTAGAGGTTCGAA
CAGCATTCACTGTCAAGGCAGGATCTTTGAGTGACTTGAGTAAAAAAGATAAAACAAAAT
CATCTCTTAGTAATATTGCTAATAATGTTGGCGGAAGTCTCTTATCACTTGGACAAATAG
AAAAACATAAGAGTCTGAAAAAGTTTGCTAAATCACTTGGCAATAAGATGCACGTAACTG
GAAAGAAGAAAAAAGACAAAGGTGAAGATTCAGATTCATATACTGGTAGCTTTTCGAGTC
TTGGTACACCTAGCTTGGGAACAAGAAATAGTTTTCATTTACGCAACGAAGGAAATGCTG
ATCCAGGTGTTATCAGTGAGGATGAAGATGAATTTGCTTTCGAGAATTTGTCTCATAAAA
GTTCATCAAATTCTCTCAACGTTCGACAAAAGAATAATAACTTAATTTTGACAAAACAAG
AAGATTTATCGACTCCAGTTGCTACACTGCGTGAAAGTGCCACACTTCCGCAGTTGAGTA
AGCCATCAACGAAAAATGTTCACGAGACGCCAACAAAAGAATCATCTAAAGTGGATGAGT
GGGAAGCGAAATTGTATGGGAAAAATGTAGAAATTGGACATAGTACTGACTCACTTAAAC
GACGATCGTGGGAAAATTCTCGCGTTCCATTCAATAATTCAGAACATGAGTTAAAAGAGA
AAGAACGTGAACCAACAATTCAAGAACAATCATTAGAACGTGTATCTTTGGACTTTGCTT
CAACTGCACCAGCTTCGCCTGAGCTTAATACTAAAAAAATTAATAATGCTTTGGATTCAA
AGCCATTACCGTTGCCACGTGCAGCAACAGCAGCAGAACCAATTGTCTCACTCAATATTG
ACGATGAGTTACGTTCAAACAATAAAAACAACATGTCACCAACATCACTCAAGGGCGAGA
AAGCAGAAAAAGAAAACATTTTCTCAAAGAAATGGAAAAACTTTAGAAAAGAGCACACGC
CAAATAAAAATGAAAGTGAATCGATAAAAAATCAATATAATAAATCATCAACAGGCAGTG
GTAATGGAGGTGAAAGAATTATAATTGGAGGTGATAATGCTTTCAATTCACAGTCATATG
TTGAGAAAAAAATTGATTTGCCAAAAGAAGTGCTCGCAAAATATGATGGAAAATCAAAAG
AGGAAATAATGAAGATTGCTCATAATCTTGAAGGCGATTTGATTCAACAGAGACAAAAGA
ACAAGGAACTGGAAGAATATCTCGATATATTGTTATTGAAGGTCATGGAAACTCATCCAA
AAATATTGCAAAATCCTTATATCAATTCGCAGAGCGGCTAAAAAGAAAAAAATGACATTT
ACCTTTTGTTCGAAAACAACAAATCAAAAAAATTAATGTGGCCTTTACATTGAAAAATGA
AAGAGTGATGAAAAAGAAAAGAGAAAATTTAATTTTATACTTAAAAATGAAAATTAACAT
AAAATATTTATGCTATAGTTGTAATGAAAACATATTTTGTTTTTCTTTTTTTGTAACAAT
TATAATTATGTGATTATTTGATTTATTAGAAAAATAATTTCATTCCATACACACAAAACT
CTTGTGATGATGATGGAAAAATGAAAGAGACATCCACTAACATCAGCTGATTAGTTTTAA
AACAAAAATAATATTATCGTTTTGTTATTAAACAGAAACGTTTAAATAAATTAAAAATTA
TCTTCCTCCTACATTGAAAACTACGATTTTATCATCAATTGTTATTTATTTATTCTATGA
TAATTTTGTAATTTTAACTCATGTACCTTTTTATTAACCTACTCAACATCACTTTTAATT
TATGCAATGAATAAACTATTCTCTGAAAATGGAA
>g13346.t7 Gene=g13346 Length=466
MDHFDRPRSRWYKLQSKPGQEKKDKDRGELEVRTAFTVKAGSLSDLSKKDKTKSSLSNIA
NNVGGSLLSLGQIEKHKSLKKFAKSLGNKMHVTGKKKKDKGEDSDSYTGSFSSLGTPSLG
TRNSFHLRNEGNADPGVISEDEDEFAFENLSHKSSSNSLNVRQKNNNLILTKQEDLSTPV
ATLRESATLPQLSKPSTKNVHETPTKESSKVDEWEAKLYGKNVEIGHSTDSLKRRSWENS
RVPFNNSEHELKEKEREPTIQEQSLERVSLDFASTAPASPELNTKKINNALDSKPLPLPR
AATAAEPIVSLNIDDELRSNNKNNMSPTSLKGEKAEKENIFSKKWKNFRKEHTPNKNESE
SIKNQYNKSSTGSGNGGERIIIGGDNAFNSQSYVEKKIDLPKEVLAKYDGKSKEEIMKIA
HNLEGDLIQQRQKNKELEEYLDILLLKVMETHPKILQNPYINSQSG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g13346.t7 | Coils | Coil | Coil | 420 | 440 | - |
| 10 | g13346.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 29 | - |
| 11 | g13346.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 90 | 115 | - |
| 7 | g13346.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 186 | 211 | - |
| 9 | g13346.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 350 | 374 | - |
| 8 | g13346.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 359 | 374 | - |
| 3 | g13346.t7 | PANTHER | PTHR15746:SF23 | RAB11 INTERACTING PROTEIN, ISOFORM A | 5 | 262 | 9.3E-42 |
| 5 | g13346.t7 | PANTHER | PTHR15746 | RAB11-RELATED | 5 | 262 | 9.3E-42 |
| 2 | g13346.t7 | PANTHER | PTHR15746:SF23 | RAB11 INTERACTING PROTEIN, ISOFORM A | 402 | 463 | 9.3E-42 |
| 4 | g13346.t7 | PANTHER | PTHR15746 | RAB11-RELATED | 402 | 463 | 9.3E-42 |
| 1 | g13346.t7 | Pfam | PF09457 | FIP domain | 412 | 459 | 2.4E-11 |
| 13 | g13346.t7 | ProSiteProfiles | PS51511 | FIP-RBD domain profile. | 397 | 459 | 12.047 |
| 6 | g13346.t7 | SUPERFAMILY | SSF144270 | Eferin C-derminal domain-like | 430 | 460 | 1.83E-8 |
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:0031267 | small GTPase 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.
