General information for g13156.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Pleckstrin homology domain-containing family M member 3.
Parent gene
- The parent gene g13156 is located on chr_1: 28282777..28283713 (+ 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 | g13156 | g13156.t1 | TSS | g13156.t1 | 28280293 | 28280293 |
| chr_1 | g13156 | g13156.t1 | isoform | g13156.t1 | 28280411 | 28282777 |
| chr_1 | g13156 | g13156.t1 | exon | g13156.t1.exon1 | 28280411 | 28280457 |
| chr_1 | g13156 | g13156.t1 | cds | g13156.t1.CDS1 | 28280411 | 28280457 |
| chr_1 | g13156 | g13156.t1 | exon | g13156.t1.exon2 | 28280530 | 28280615 |
| chr_1 | g13156 | g13156.t1 | cds | g13156.t1.CDS2 | 28280530 | 28280615 |
| chr_1 | g13156 | g13156.t1 | exon | g13156.t1.exon3 | 28280772 | 28282255 |
| chr_1 | g13156 | g13156.t1 | cds | g13156.t1.CDS3 | 28280772 | 28282255 |
| chr_1 | g13156 | g13156.t1 | exon | g13156.t1.exon4 | 28282316 | 28282777 |
| chr_1 | g13156 | g13156.t1 | cds | g13156.t1.CDS4 | 28282316 | 28282777 |
| chr_1 | g13156 | g13156.t1 | TTS | g13156.t1 | 28282873 | 28282873 |
Sequences
>g13156.t1 Gene=g13156 Length=2079
ATGAATAAATTTCTCAAAGATAAAGAAAATAAATATTTTGAAGAGAGGCAAAAATATATT
CGTGAAACTCTCAATTATCACTTGAGCGAAAATGTGAAAGAGAACGAATATGAGTTTAAG
ACTAAGAATAATGAAACACTCGGATTCTGTGAGTGCAGTAGTGCACTTTGCTATACAATA
GAAGCAATTCTTCTGCATGGTCTAAAGGAATCATTTTTACAAATACTCTCGAATTTTGGA
AGTGATGAGAGTGCTAAACCAAATCCCTCTTTTTGGAGCTTCGTTTTGCTTTTTCTGCAT
AAGCAAGATATAAAAGACATTCAATCGCTTACTCAACTCACATGTGAAGTCGGTTACTCA
CGAGCTTTTGTACGCAAAGCTTTAAATGAATCATTGCTTAGCTCATATCTAAAAAATATA
CGAAAATCAACATCAACGCTTAAAAAATATTATAATCCATATGCATTTTTACTTGATCAT
GAATTAAGTGAAACAGCAATAAGTTTGCTTATCGGTATTGAGAGCTATGTGGTTTTTAAT
TTACCATGCAATTCGTCATTACTCAATGTTTGGAATGACACTCCACTTCAACTTTCTGGC
TTATATACAGCACCATTAAAAAGTGTACCATTTCTCTTTGGTGAAGATGCTGCAGAACTT
TTGGTATCAACAAGCACGCACAATATAGACATTCCACCACAGAAAAATAATGTTCTATCT
GATATTTACACACATGAGATATCTAATTCAATATTTAGTAACACACCTAGTTCAATTGAT
GATTTTGATGAGAATGAAAAATTTGAAAATTTTATTAGAAAAGTTGATAGTCCTGGTGGT
GAAGATACAAATGAAGATATATCAGAACGAATGTGTGAATCAAATGATGAGCCATTAACT
GAAAGTCAAGATATGCATCTTCCACTAGACAATGATGAAGAGAAAATGCAAGAAAGTCAA
GACGATGTCACACCAGAAAATAAAATTGGAAATTCATTACTAAGTGGTCAAAATAGTTGG
ACATCTGGAGAACCTGCTGTTCAAATTTATAGAGAAGAAGTAGAAGAGGAAAATGCTGAA
GGTGGAGCTGCATCTACTGCAGAAATTGTGTACAATCGTTCAGTAACTGTGCGCTCAGCA
ACAATTGATAATCAAAGTTTTGAGTCACTTTTAGAAGAGAAAATGAGAAGAAATAGTGTT
AACTTCAAAGCAGTGTGGGAAAGATTTCATAAAACAATGGAAAATAAAAATAAAAACATT
CCAGAAGAAGAGGAAGCACCTGAAGGCTATGAAGTTATTAAAACATCTTTAGCAAATAAG
AAAGAAGCAGAAGAATTAGAACAGATGGTTGAAATTTTATGTAGATTAACTACTGAAAAT
GGACTTGATCAGCAGGGATTCGTTTGTAAAGGATGCAAATCTCCTCTTGTCGATATCTCT
AAAGCAACAGTTTGTGGGTTTGATGCTTGCTATTATTGTTCTGCGTGCATTTCTAAAGAT
AAATATGCAATACCAGCAAAAATAATTTATAATTGGGACTTTTCAAAATATTCTGTAAGC
AAAAAAGCTGCTGACTTTATTTCTGAATATCAATTTAAGCCATTTATTGATTTTAAGATA
TTAAATCCTGATATATATTCATATATCGATGAAATGAACAATTTACAAAAACTTCGAATA
CAATTGAACTTTATCCGCGCTTATATTTTCACATGTTCAGAAAGCACAATTAATGAACTT
CAAAAACTTTTATATGGAAAAGAACATATTTATGAAACAATTCACCTTTACTCAGTATCT
GATTTATTTCTCATACAAAATGGTGCATTTGAAGCATTGCTTAAAAAAGTTGTAAGTTTT
GGTCGAGAACATTGCTTAAAGTGCATTTTATGTAGTAACAAAGGATTCATATGTGAGATA
TGCAGACGTTCAAAAATAATTTATGCATTTGACGTTGATGATACGGTGAGATGTAATACA
TGTGGTACCGTATCGCATATTAATTGCTATAAGCCAACTCAACCATGTCCTAAATGTGAA
AGAAGACGTAAAAGACAAATAGTTTCAATACTGGAATAA
>g13156.t1 Gene=g13156 Length=692
MNKFLKDKENKYFEERQKYIRETLNYHLSENVKENEYEFKTKNNETLGFCECSSALCYTI
EAILLHGLKESFLQILSNFGSDESAKPNPSFWSFVLLFLHKQDIKDIQSLTQLTCEVGYS
RAFVRKALNESLLSSYLKNIRKSTSTLKKYYNPYAFLLDHELSETAISLLIGIESYVVFN
LPCNSSLLNVWNDTPLQLSGLYTAPLKSVPFLFGEDAAELLVSTSTHNIDIPPQKNNVLS
DIYTHEISNSIFSNTPSSIDDFDENEKFENFIRKVDSPGGEDTNEDISERMCESNDEPLT
ESQDMHLPLDNDEEKMQESQDDVTPENKIGNSLLSGQNSWTSGEPAVQIYREEVEEENAE
GGAASTAEIVYNRSVTVRSATIDNQSFESLLEEKMRRNSVNFKAVWERFHKTMENKNKNI
PEEEEAPEGYEVIKTSLANKKEAEELEQMVEILCRLTTENGLDQQGFVCKGCKSPLVDIS
KATVCGFDACYYCSACISKDKYAIPAKIIYNWDFSKYSVSKKAADFISEYQFKPFIDFKI
LNPDIYSYIDEMNNLQKLRIQLNFIRAYIFTCSESTINELQKLLYGKEHIYETIHLYSVS
DLFLIQNGAFEALLKKVVSFGREHCLKCILCSNKGFICEICRRSKIIYAFDVDDTVRCNT
CGTVSHINCYKPTQPCPKCERRRKRQIVSILE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g13156.t1 | CDD | cd15489 | PHD_SF | 637 | 679 | 0.00119708 |
| 6 | g13156.t1 | Gene3D | G3DSA:1.20.58.900 | - | 13 | 189 | 1.4E-30 |
| 10 | g13156.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 274 | 300 | - |
| 11 | g13156.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 274 | 301 | - |
| 3 | g13156.t1 | PANTHER | PTHR12326:SF12 | PROTEIN CBG20681 | 15 | 686 | 1.0E-157 |
| 4 | g13156.t1 | PANTHER | PTHR12326 | PLECKSTRIN HOMOLOGY DOMAIN CONTAINING PROTEIN | 15 | 686 | 1.0E-157 |
| 2 | g13156.t1 | Pfam | PF02759 | RUN domain | 56 | 182 | 8.5E-19 |
| 1 | g13156.t1 | Pfam | PF13901 | Putative zinc-RING and/or ribbon | 484 | 683 | 2.0E-59 |
| 12 | g13156.t1 | ProSiteProfiles | PS50826 | RUN domain profile. | 47 | 186 | 32.459 |
| 8 | g13156.t1 | SMART | SM00593 | 893paper3 | 120 | 184 | 1.9E-12 |
| 9 | g13156.t1 | SMART | SM01175 | DUF4206_2 | 483 | 686 | 9.6E-86 |
| 5 | g13156.t1 | SUPERFAMILY | SSF140741 | RUN domain-like | 21 | 189 | 1.83E-29 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K23282 (pleckstrin homology domain-containing family M member 1)
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.
