Gene loci information

Transcript annotation

  • This transcript has been annotated as AT-rich interactive domain-containing protein 4B.

Parent gene

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.t5 TTS g13663.t5 31463644 31463644
chr_1 g13663 g13663.t5 isoform g13663.t5 31463799 31465299
chr_1 g13663 g13663.t5 exon g13663.t5.exon1 31463799 31463959
chr_1 g13663 g13663.t5 cds g13663.t5.CDS1 31463801 31463959
chr_1 g13663 g13663.t5 exon g13663.t5.exon2 31464022 31465212
chr_1 g13663 g13663.t5 cds g13663.t5.CDS2 31464022 31465212
chr_1 g13663 g13663.t5 exon g13663.t5.exon3 31465297 31465299
chr_1 g13663 g13663.t5 cds g13663.t5.CDS3 31465297 31465299
chr_1 g13663 g13663.t5 TSS g13663.t5 31465486 31465486

Sequences

>g13663.t5 Gene=g13663 Length=1355
ATGCAAGGAATACCTCAAAAGGATAAAGACGATCCTGTTGTTTTATCAGTAGGTGCACAA
GTTAGTGCAAAATATAAAGGAGCATTTTGTGAGGCAAAAGTTCATAAGGTCGTGAAAAAT
ATCAAAGTTAAAGTCGCATTTAAAAAAGGAGGAACGGCAACTGTTACAGATGATGAAATA
ATAGGCGAAATTCGTGTTGGAAATATCGTAGAAATAAATGATGCAGATAAAAAAGAAACA
AATGAAGCAACTATCACAAAAATACAGGATTGCTCTCAATATACTGTAGTTTTTGATGAT
GGTGATATTGCAACATTAAGACGCACTGCTCTTTGTCGTCAATCGGGAAAACATTTTAAT
GCTTGTGATACTCTTGATCAATTGCCTTTGACTCATCCAGAACATCGAGGAGGAGGCAAA
CGAACTAAAACGCAAGATGAGTATGAATCAGATGATGAAGAATATGCTATAGGGAAAGTT
GTTTGTGTAGAAAACAATGATACAAAGAAGAAAAATGTCAAAGAAAGTTACTTTCCTGCA
TTAGTTGTTGCACCAAAAGCCCAAGAAAATGTAAAGATTCATATCAAAACTGAATATTTA
GTGAGATCTTTCAAAGATGGTCGTTATTATACTGTACCTAAAAAAGAGGTCACTGAATTT
ACAAATGATACTGCATCAAAATCTGATTCAACTGCTGTTGCAGCAGCTCGTGAGTTTTTG
GATAAAAATGTTCTCCCTCCACATTGGGATCGTGAAGTTTTAATTGATTCGGCTAGTTTA
AGTGATCAAGAACTTTCTGATAGTTCCGATGATGAACCAAATGAAGTTAAAGATAGATTT
TTTGCGCAATTACTTGAGTTTATGGAGAAACGAAACTCGCCTCTCAATAAAGGGCCAAGT
ATTACAAATCGAGATGTGGACTTGTATCGACTTTACTACTCAGTAGAAAAATTAGGTGGT
TATGCTAATGTCACTAAAATTAGAAATTGGAAAGCAATTGCTAAACGTCTCGGATTTACA
CCAACTGATGCAATCGTAAAATTGGTAAAGCATTCTTATAGAAAATTTCTATTAGCATTT
GAAGAAGCAGTGTCAAAAGGAATCGAGGATTTACCTCCAAGAGCCAATCGAGATAAAGCG
AGAAGTAGTTCAACACGATCTGGCTCTGTGGCATCGCCAAAAGTAGTTGAAAGTGCAAAG
AAAAAAGTTGAAAAACCAACGACAAGTAGCGTAGCGGATGATTCAGAAAATACAAGTGAA
TCTATTAAAGTTACAACTTCTCGAAAATTATCGACAGCAAGTACAAAATCGAAAGTTGAT
AAAGTAGAGGAGAAAGCAAAATCTGAAAAATTGGA

>g13663.t5 Gene=g13663 Length=451
MQGIPQKDKDDPVVLSVGAQVSAKYKGAFCEAKVHKVVKNIKVKVAFKKGGTATVTDDEI
IGEIRVGNIVEINDADKKETNEATITKIQDCSQYTVVFDDGDIATLRRTALCRQSGKHFN
ACDTLDQLPLTHPEHRGGGKRTKTQDEYESDDEEYAIGKVVCVENNDTKKKNVKESYFPA
LVVAPKAQENVKIHIKTEYLVRSFKDGRYYTVPKKEVTEFTNDTASKSDSTAVAAAREFL
DKNVLPPHWDREVLIDSASLSDQELSDSSDDEPNEVKDRFFAQLLEFMEKRNSPLNKGPS
ITNRDVDLYRLYYSVEKLGGYANVTKIRNWKAIAKRLGFTPTDAIVKLVKHSYRKFLLAF
EEAVSKGIEDLPPRANRDKARSSSTRSGSVASPKVVESAKKKVEKPTTSSVADDSENTSE
SIKVTTSRKLSTASTKSKVDKVEEKAKSEKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g13663.t5 CDD cd16100 ARID 277 361 4.77023E-26
7 g13663.t5 Gene3D G3DSA:2.30.30.1170 - 9 126 1.0E-43
8 g13663.t5 Gene3D G3DSA:2.30.30.140 - 149 260 1.9E-34
9 g13663.t5 Gene3D G3DSA:1.10.150.60 - 261 379 4.6E-30
13 g13663.t5 MobiDBLite mobidb-lite consensus disorder prediction 371 451 -
15 g13663.t5 MobiDBLite mobidb-lite consensus disorder prediction 410 433 -
14 g13663.t5 MobiDBLite mobidb-lite consensus disorder prediction 434 451 -
3 g13663.t5 PANTHER PTHR13964 RBP-RELATED 9 438 1.7E-133
4 g13663.t5 PANTHER PTHR13964:SF27 HAT-TRICK, ISOFORM D 9 438 1.7E-133
1 g13663.t5 Pfam PF08169 RBB1NT (NUC162) domain 154 247 2.9E-28
2 g13663.t5 Pfam PF01388 ARID/BRIGHT DNA binding domain 277 361 6.1E-20
16 g13663.t5 ProSiteProfiles PS51011 ARID domain profile. 274 365 26.973
12 g13663.t5 SMART SM01014 ARID_2 271 361 1.3E-26
11 g13663.t5 SMART SM00501 bright_3 275 366 1.7E-23
5 g13663.t5 SUPERFAMILY SSF63748 Tudor/PWWP/MBT 64 117 9.03E-6
6 g13663.t5 SUPERFAMILY SSF46774 ARID-like 272 374 5.62E-25

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

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