General information for g12528.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Lipoma-preferred partner-like protein.
Parent gene
- The parent gene g12528 is located on chr_1: 24263796..24265228 (+ 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 | g12528 | g12528.t4 | TSS | g12528.t4 | 24262846 | 24262846 |
| chr_1 | g12528 | g12528.t4 | isoform | g12528.t4 | 24263796 | 24265228 |
| chr_1 | g12528 | g12528.t4 | exon | g12528.t4.exon1 | 24263796 | 24264655 |
| chr_1 | g12528 | g12528.t4 | cds | g12528.t4.CDS1 | 24264017 | 24264655 |
| chr_1 | g12528 | g12528.t4 | exon | g12528.t4.exon2 | 24264709 | 24265228 |
| chr_1 | g12528 | g12528.t4 | cds | g12528.t4.CDS2 | 24264709 | 24264828 |
| chr_1 | g12528 | g12528.t4 | TTS | g12528.t4 | 24265227 | 24265227 |
Sequences
>g12528.t4 Gene=g12528 Length=1380
CTGAATTAAGACGTGCAACTGACACAAATTGTTATGCAACAACAATCTTGCCAGCACCAA
TTAATCATCAATATCGAATTGGAAATGTTGTAGCTAATCAGCATCAAATAAAAAATAATA
CTTATTCGAATGATTATGGAATTTATGGTGGTCCACTTTCTCAAAATTCAACAACTTATG
AATCAATTTATGAACCAATTAATCCACGTCCACAATCACAAATGTCTTCGCGCTCAAATT
ACTCACTTTATGCTCCATATGTTGACGGACTGTGCAGTAGCAGTAGCTCAATGAATCGCT
TGCCAGTTATTACACAAGAGACAGAAGTTGATGCGCTCACTGATTTATTAGTCCAATCAA
TTCATCAAGCAAATCCCGATCCTGATAATTATGGAACTTGTTGTAAATGCAATGGTATTG
TCACTGAAGCATCCGGTTGTACTGCTATGGAAAAAATTTATCACATTGCTTGTTTCACGT
GTCATCAATGTCAAACGAGCTTGCAAGGTAAACCGTTTTATGGACTCGATGGTAAACCAT
TTTGTGAAGAAGATTATTTGAATACACTCGAGAAATGTTGTGTTTGCTTGCAACCAATTA
CTGAACGCATTTTAAGAGCAACAGGAAAACCTTATCATCCACAATGCTTTAAATGTATTG
TTTGTGGTGAAAGTTTAGATGGCATTCCTTTCACTGTTGATGCTACAAATAAAATTCATT
GCATTGAAGATTTTCATAAACGCTTTGCACCACGTTGTTCTGTTTGCAAGAAGCCCATTA
TGCCGGAACCAGGAAAAGAAGAAACTATTCGGGTTGTGGCACTTGACCGTAGTTTTCATA
TCAATTGTTATAAATGCGAGGATTGTGGACTATTGCTATCATCAGAGGCAGAAGGAAGAG
GTTGCTTCCCGCTTGATGATCATGTATTGTGTAAAAATTGCAATGCCAAACGAGTTCAAG
CTTTGACGAGTATGATTTAATCACCATAAAGTATCTACTTATATACACACCTTAAAAATA
TACAATATTAAAAAAGATTATTATTCCAATATTGCGTATATGCGTCTATTCAAGTTGTAG
TTGCTGTTTTTTTTTGTTTTAACTTCTGTGATTCAGAAACTTCTTACCTTCAATACGCAT
CAATACTTTTATTGTATAATTTGTTTTTTGCTTTAGCATATTTGTAGTGAGAATCTTAGT
CAGGTAAAAAACAAAAGAATAAAAATGTTGTATGTGATTTGTGCATTCCATATTAAATCT
TTAACTATAATAAATAATCTTTCTTAGCACTTTTTCAATATTTCTATGATAATTAACGAA
TGAAAGAAATGTGTTTTTTTAAATAGAATAAAAATAAAAAGATTTATTAGCTATAAAGAA
>g12528.t4 Gene=g12528 Length=252
MSSRSNYSLYAPYVDGLCSSSSSMNRLPVITQETEVDALTDLLVQSIHQANPDPDNYGTC
CKCNGIVTEASGCTAMEKIYHIACFTCHQCQTSLQGKPFYGLDGKPFCEEDYLNTLEKCC
VCLQPITERILRATGKPYHPQCFKCIVCGESLDGIPFTVDATNKIHCIEDFHKRFAPRCS
VCKKPIMPEPGKEETIRVVALDRSFHINCYKCEDCGLLLSSEAEGRGCFPLDDHVLCKNC
NAKRVQALTSMI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g12528.t4 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 42 | 115 | 0.000 |
| 12 | g12528.t4 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 116 | 175 | 0.000 |
| 13 | g12528.t4 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 176 | 251 | 0.000 |
| 4 | g12528.t4 | PANTHER | PTHR24207:SF2 | ZYX102 PROTEIN | 1 | 251 | 0.000 |
| 5 | g12528.t4 | PANTHER | PTHR24207 | ZYX102 PROTEIN | 1 | 251 | 0.000 |
| 2 | g12528.t4 | Pfam | PF00412 | LIM domain | 60 | 114 | 0.000 |
| 3 | g12528.t4 | Pfam | PF00412 | LIM domain | 119 | 175 | 0.000 |
| 1 | g12528.t4 | Pfam | PF00412 | LIM domain | 179 | 243 | 0.000 |
| 15 | g12528.t4 | ProSiteProfiles | PS50023 | LIM domain profile. | 58 | 116 | 10.375 |
| 16 | g12528.t4 | ProSiteProfiles | PS50023 | LIM domain profile. | 117 | 177 | 13.038 |
| 14 | g12528.t4 | ProSiteProfiles | PS50023 | LIM domain profile. | 178 | 247 | 10.316 |
| 8 | g12528.t4 | SMART | SM00132 | lim_4 | 59 | 111 | 0.000 |
| 10 | g12528.t4 | SMART | SM00132 | lim_4 | 118 | 170 | 0.000 |
| 9 | g12528.t4 | SMART | SM00132 | lim_4 | 178 | 240 | 0.000 |
| 7 | g12528.t4 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 87 | 146 | 0.000 |
| 6 | g12528.t4 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 144 | 215 | 0.000 |
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 K16676 (lipoma-prefererred partner)
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.
