General information for g12528.t3
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.t3 | TSS | g12528.t3 | 24262846 | 24262846 |
| chr_1 | g12528 | g12528.t3 | isoform | g12528.t3 | 24263137 | 24264828 |
| chr_1 | g12528 | g12528.t3 | exon | g12528.t3.exon1 | 24263137 | 24263261 |
| chr_1 | g12528 | g12528.t3 | exon | g12528.t3.exon2 | 24263402 | 24264655 |
| chr_1 | g12528 | g12528.t3 | cds | g12528.t3.CDS1 | 24263696 | 24264655 |
| chr_1 | g12528 | g12528.t3 | exon | g12528.t3.exon3 | 24264709 | 24264828 |
| chr_1 | g12528 | g12528.t3 | cds | g12528.t3.CDS2 | 24264709 | 24264828 |
| chr_1 | g12528 | g12528.t3 | TTS | g12528.t3 | 24265227 | 24265227 |
Sequences
>g12528.t3 Gene=g12528 Length=1499
ATGGATGAATTGGCTGAAAATTTACAAAAATTGAATATGATCAAAGCTAAATTTGATCAA
ACAAAAGATCATGGCACAAATTCACCGACTTACAGTAAACCGGGGACAAAGAAAGCACCA
AGTAAAACGATGATGTCACCTCAATACCACTTGTACCGAGAAGTACATTGAGCAATAAAA
TTTGTAAGCCATCATATGTGACTCCTTTAGTTGGTGGAGTTGCATCTGATGATCCACACA
TTTATGCCAATGCAAATAAAACACTCGATGATGCGATTGAGTTGCAGTTAAAAAAAGAAG
CACTCGAACATAGGAAGAAAATTTTAGAATATAATAAAAATATTTATGCAAATAGTCAGA
AAGCACAATTTTATGAAAATATCAATAATCAAGGTGATAAATTGATTTATTCAAATTTAA
TGCATCCACCACCACCACCACCACCGCTTGATGTGAACACAGTGGCTGAACATGATGAAG
AATTTCCAGGTCCTCCATCACCAGTGTCTTCATCATATTCTGAATTAAGACGTGCAACTG
ACACAAATTGTTATGCAACAACAATCTTGCCAGCACCAATTAATCATCAATATCGAATTG
GAAATGTTGTAGCTAATCAGCATCAAATAAAAAATAATACTTATTCGAATGATTATGGAA
TTTATGGTGGTCCACTTTCTCAAAATTCAACAACTTATGAATCAATTTATGAACCAATTA
ATCCACGTCCACAATCACAAATGTCTTCGCGCTCAAATTACTCACTTTATGCTCCATATG
TTGACGGACTGTGCAGTAGCAGTAGCTCAATGAATCGCTTGCCAGTTATTACACAAGAGA
CAGAAGTTGATGCGCTCACTGATTTATTAGTCCAATCAATTCATCAAGCAAATCCCGATC
CTGATAATTATGGAACTTGTTGTAAATGCAATGGTATTGTCACTGAAGCATCCGGTTGTA
CTGCTATGGAAAAAATTTATCACATTGCTTGTTTCACGTGTCATCAATGTCAAACGAGCT
TGCAAGGTAAACCGTTTTATGGACTCGATGGTAAACCATTTTGTGAAGAAGATTATTTGA
ATACACTCGAGAAATGTTGTGTTTGCTTGCAACCAATTACTGAACGCATTTTAAGAGCAA
CAGGAAAACCTTATCATCCACAATGCTTTAAATGTATTGTTTGTGGTGAAAGTTTAGATG
GCATTCCTTTCACTGTTGATGCTACAAATAAAATTCATTGCATTGAAGATTTTCATAAAC
GCTTTGCACCACGTTGTTCTGTTTGCAAGAAGCCCATTATGCCGGAACCAGGAAAAGAAG
AAACTATTCGGGTTGTGGCACTTGACCGTAGTTTTCATATCAATTGTTATAAATGCGAGG
ATTGTGGACTATTGCTATCATCAGAGGCAGAAGGAAGAGGTTGCTTCCCGCTTGATGATC
ATGTATTGTGTAAAAATTGCAATGCCAAACGAGTTCAAGCTTTGACGAGTATGATTTAA
>g12528.t3 Gene=g12528 Length=359
MHPPPPPPPLDVNTVAEHDEEFPGPPSPVSSSYSELRRATDTNCYATTILPAPINHQYRI
GNVVANQHQIKNNTYSNDYGIYGGPLSQNSTTYESIYEPINPRPQSQMSSRSNYSLYAPY
VDGLCSSSSSMNRLPVITQETEVDALTDLLVQSIHQANPDPDNYGTCCKCNGIVTEASGC
TAMEKIYHIACFTCHQCQTSLQGKPFYGLDGKPFCEEDYLNTLEKCCVCLQPITERILRA
TGKPYHPQCFKCIVCGESLDGIPFTVDATNKIHCIEDFHKRFAPRCSVCKKPIMPEPGKE
ETIRVVALDRSFHINCYKCEDCGLLLSSEAEGRGCFPLDDHVLCKNCNAKRVQALTSMI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g12528.t3 | CDD | cd09437 | LIM3_LPP | 286 | 353 | 5.69536E-41 |
| 9 | g12528.t3 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 149 | 222 | 3.9E-15 |
| 8 | g12528.t3 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 223 | 282 | 7.2E-18 |
| 10 | g12528.t3 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 283 | 358 | 2.0E-18 |
| 15 | g12528.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 35 | - |
| 4 | g12528.t3 | PANTHER | PTHR24207:SF2 | ZYX102 PROTEIN | 53 | 358 | 4.8E-147 |
| 5 | g12528.t3 | PANTHER | PTHR24207 | ZYX102 PROTEIN | 53 | 358 | 4.8E-147 |
| 2 | g12528.t3 | Pfam | PF00412 | LIM domain | 167 | 221 | 3.3E-12 |
| 1 | g12528.t3 | Pfam | PF00412 | LIM domain | 226 | 282 | 9.2E-10 |
| 3 | g12528.t3 | Pfam | PF00412 | LIM domain | 286 | 350 | 3.8E-8 |
| 18 | g12528.t3 | ProSiteProfiles | PS50023 | LIM domain profile. | 165 | 223 | 10.375 |
| 17 | g12528.t3 | ProSiteProfiles | PS50023 | LIM domain profile. | 224 | 284 | 13.038 |
| 16 | g12528.t3 | ProSiteProfiles | PS50023 | LIM domain profile. | 285 | 354 | 10.316 |
| 14 | g12528.t3 | SMART | SM00132 | lim_4 | 166 | 218 | 5.4E-14 |
| 12 | g12528.t3 | SMART | SM00132 | lim_4 | 225 | 277 | 1.7E-13 |
| 13 | g12528.t3 | SMART | SM00132 | lim_4 | 285 | 347 | 1.8E-15 |
| 6 | g12528.t3 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 194 | 255 | 4.63E-14 |
| 7 | g12528.t3 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 251 | 322 | 6.56E-13 |
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.
