General information for g13663.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as AT-rich interactive domain-containing protein 4B.
Parent gene
- The parent gene g13663 is located on chr_1: 31464051..31465299 (- 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 | g13663 | g13663.t6 | TTS | g13663.t6 | 31463644 | 31463644 |
| chr_1 | g13663 | g13663.t6 | isoform | g13663.t6 | 31464051 | 31465299 |
| chr_1 | g13663 | g13663.t6 | exon | g13663.t6.exon1 | 31464051 | 31465212 |
| chr_1 | g13663 | g13663.t6 | cds | g13663.t6.CDS1 | 31464052 | 31465212 |
| chr_1 | g13663 | g13663.t6 | exon | g13663.t6.exon2 | 31465297 | 31465299 |
| chr_1 | g13663 | g13663.t6 | cds | g13663.t6.CDS2 | 31465297 | 31465299 |
| chr_1 | g13663 | g13663.t6 | TSS | g13663.t6 | 31465486 | 31465486 |
Sequences
>g13663.t6 Gene=g13663 Length=1165
ATGCAAGGAATACCTCAAAAGGATAAAGACGATCCTGTTGTTTTATCAGTAGGTGCACAA
GTTAGTGCAAAATATAAAGGAGCATTTTGTGAGGCAAAAGTTCATAAGGTCGTGAAAAAT
ATCAAAGTTAAAGTCGCATTTAAAAAAGGAGGAACGGCAACTGTTACAGATGATGAAATA
ATAGGCGAAATTCGTGTTGGAAATATCGTAGAAATAAATGATGCAGATAAAAAAGAAACA
AATGAAGCAACTATCACAAAAATACAGGATTGCTCTCAATATACTGTAGTTTTTGATGAT
GGTGATATTGCAACATTAAGACGCACTGCTCTTTGTCGTCAATCGGGAAAACATTTTAAT
GCTTGTGATACTCTTGATCAATTGCCTTTGACTCATCCAGAACATCGAGGAGGAGGCAAA
CGAACTAAAACGCAAGATGAGTATGAATCAGATGATGAAGAATATGCTATAGGGAAAGTT
GTTTGTGTAGAAAACAATGATACAAAGAAGAAAAATGTCAAAGAAAGTTACTTTCCTGCA
TTAGTTGTTGCACCAAAAGCCCAAGAAAATGTAAAGATTCATATCAAAACTGAATATTTA
GTGAGATCTTTCAAAGATGGTCGTTATTATACTGTACCTAAAAAAGAGGTCACTGAATTT
ACAAATGATACTGCATCAAAATCTGATTCAACTGCTGTTGCAGCAGCTCGTGAGTTTTTG
GATAAAAATGTTCTCCCTCCACATTGGGATCGTGAAGTTTTAATTGATTCGGCTAGTTTA
AGTGATCAAGAACTTTCTGATAGTTCCGATGATGAACCAAATGAAGTTAAAGATAGATTT
TTTGCGCAATTACTTGAGTTTATGGAGAAACGAAACTCGCCTCTCAATAAAGGGCCAAGT
ATTACAAATCGAGATGTGGACTTGTATCGACTTTACTACTCAGTAGAAAAATTAGGTGGT
TATGCTAATGTCACTAAAATTAGAAATTGGAAAGCAATTGCTAAACGTCTCGGATTTACA
CCAACTGATGCAATCGTAAAATTGGTAAAGCATTCTTATAGAAAATTTCTATTAGCATTT
GAAGAAGCAGTGTCAAAAGGAATCGAGGATTTACCTCCAAGAGCCAATCGAGATAAAGCG
AGAAGTAGTTCAACACGATCTGGCT
>g13663.t6 Gene=g13663 Length=388
MQGIPQKDKDDPVVLSVGAQVSAKYKGAFCEAKVHKVVKNIKVKVAFKKGGTATVTDDEI
IGEIRVGNIVEINDADKKETNEATITKIQDCSQYTVVFDDGDIATLRRTALCRQSGKHFN
ACDTLDQLPLTHPEHRGGGKRTKTQDEYESDDEEYAIGKVVCVENNDTKKKNVKESYFPA
LVVAPKAQENVKIHIKTEYLVRSFKDGRYYTVPKKEVTEFTNDTASKSDSTAVAAAREFL
DKNVLPPHWDREVLIDSASLSDQELSDSSDDEPNEVKDRFFAQLLEFMEKRNSPLNKGPS
ITNRDVDLYRLYYSVEKLGGYANVTKIRNWKAIAKRLGFTPTDAIVKLVKHSYRKFLLAF
EEAVSKGIEDLPPRANRDKARSSSTRSG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g13663.t6 | CDD | cd16100 | ARID | 277 | 361 | 0.0000000 |
| 9 | g13663.t6 | Gene3D | G3DSA:2.30.30.1170 | - | 9 | 126 | 0.0000000 |
| 10 | g13663.t6 | Gene3D | G3DSA:2.30.30.140 | - | 149 | 260 | 0.0000000 |
| 11 | g13663.t6 | Gene3D | G3DSA:1.10.150.60 | - | 261 | 379 | 0.0000000 |
| 3 | g13663.t6 | PANTHER | PTHR13964 | RBP-RELATED | 9 | 368 | 0.0000000 |
| 4 | g13663.t6 | PANTHER | PTHR13964:SF27 | HAT-TRICK, ISOFORM D | 9 | 368 | 0.0000000 |
| 1 | g13663.t6 | Pfam | PF08169 | RBB1NT (NUC162) domain | 154 | 247 | 0.0000000 |
| 2 | g13663.t6 | Pfam | PF01388 | ARID/BRIGHT DNA binding domain | 277 | 361 | 0.0000000 |
| 12 | g13663.t6 | ProSiteProfiles | PS51011 | ARID domain profile. | 274 | 365 | 26.9730000 |
| 8 | g13663.t6 | SMART | SM01014 | ARID_2 | 271 | 361 | 0.0000000 |
| 7 | g13663.t6 | SMART | SM00501 | bright_3 | 275 | 366 | 0.0000000 |
| 5 | g13663.t6 | SUPERFAMILY | SSF63748 | Tudor/PWWP/MBT | 64 | 117 | 0.0000073 |
| 6 | g13663.t6 | SUPERFAMILY | SSF46774 | ARID-like | 272 | 374 | 0.0000000 |
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:0003677 | DNA binding | MF |
KEGG
Orthology
- This transcript has been annotated with K07874 (Ras-related protein Rab-1A)
Pathway
- This transcript belongs to the following pathways
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