General information for g12336.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Fukutin-related protein.
Parent gene
- The parent gene g12336 is located on chr_1: 22633166..22635318 (- 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 | g12336 | g12336.t1 | isoform | g12336.t1 | 22633166 | 22635318 |
| chr_1 | g12336 | g12336.t1 | exon | g12336.t1.exon1 | 22633166 | 22634128 |
| chr_1 | g12336 | g12336.t1 | cds | g12336.t1.CDS1 | 22633166 | 22634128 |
| chr_1 | g12336 | g12336.t1 | exon | g12336.t1.exon2 | 22634402 | 22634518 |
| chr_1 | g12336 | g12336.t1 | cds | g12336.t1.CDS2 | 22634402 | 22634518 |
| chr_1 | g12336 | g12336.t1 | exon | g12336.t1.exon3 | 22634584 | 22635318 |
| chr_1 | g12336 | g12336.t1 | cds | g12336.t1.CDS3 | 22634584 | 22635318 |
| chr_1 | g12336 | g12336.t1 | TSS | g12336.t1 | NA | NA |
| chr_1 | g12336 | g12336.t1 | TTS | g12336.t1 | NA | NA |
Sequences
>g12336.t1 Gene=g12336 Length=1815
ATGAGAATGAGAATTAGAATATCAAAATTTGCAATTTTATGCATTTTAGTGATAAATCTT
TTATTAGTTTTTATATCGTGGAAATATTTCACGACTGAAAACACACTTCAAAGAAACAAT
TCATACTCAGAGCCTTCATTTAGTGACATTCGATTAGAAACGACAGTGAAAACAAGTCGT
AATCGAGTTCATGAATTAAAGAAATTTCTTCACAAGTCATTGACTGTAGTTATTAGAGAT
TTTTATCACTTCGATAATGACCTAAAATATGGAATTGACCATCTTCTTAATTTTCTTCCT
GAGCTAAAAATTTTGATAGTTAGTGATGAACAATATCCGTATCCACCGATAAATATTTTT
ACATCAATTCAAAATCCCAATCAAACGTCAAAACCTTCGACACTTATTTACAAAGAAAAT
GTACAATTTCTGCCCTTACCGATAGACATAACAAAATCATCAAGTGAAATGAATCCATTG
ACTTATATTCAAACTAAATATGTTCTATTTTTGCCTGATAATTTTAAACTTTCAAATGGT
CGTCAAATGTTTAATCGATTAATTAAGAGCATTGATGATGAAAATAATCGACATGAACGA
GGAATAAGGAAAATTTTGATAATTCCTTTTGCATCAAATCAGAAACACTATAATTATTGT
TTTCAAATAAATGCTGATATTCAAAATTGGAACATTGAATATATCGTGAAAAATTCCACA
AAAAATTGCGATTTGTACACTGGGAAGCATGCAATTTTATTGGAAACTGTTTTGCTGCAC
AATTTCCCACAGCCATTTGATTCGCCTTTTCCTGAATATTTTTACCTTCAAGCAAAGTTC
TCTAATTGCAAGCTTAAATACTCAAATGAAACGTTTCTTGATGGTGGAAAGAAATTAATG
TCATCATATCATTCTAGAATGAAGCGAAAAAATCTTAAAAAAGAGCAATTTAAAGCACTT
TATAAAAAGCTTCAGTTTAAGAAAGTGGTTAAGAAATATCACTTTATACCAGAAGATAAA
ACAAGTTTAAAGAGCTTAAAGAAAAATCGAGGAAAAGGAAATAATAAATTGTATAACGAG
AAGAATCTAAAGAGCAATACAAATGTAAAAGCTACCAGTAAAGACGGTCGTGAGATTGAT
GTGCTTATAGAACAATTAGAAGTTCCTTCATCATTTTTCCAATACAGCAATCGCTCTGCA
CAAGTACAAATTAATACTGATATAAGTTATTTTGGATGTGAGAAAAACACGAAAAGCTGC
ATAGGTCAAGTATACAATGAGAAGCCATTTTATCTATATCTTAATCGACACACACCTCCA
TGTTGTTTGGAAAAGTTAAAAAATATTTTCAAGTATGTTGTGGAAGAATTGGAAAACACT
GGCATTCGTTACTGGCTTGATAATAAAGTTTTATCAGATATTGTCGAGTTTAATGATTTA
TCAAATGATGCATATGAAATTGACATTAGTTTTAATGTTAATGACTACAATCGCTCAACT
GCAGTTCGTCGTTGTTTCGACTCTCGACCATTTACAGATCTTGCTGGATATTATTGGTAT
AAAGCAACTGATGGACATTATCTTAAAATTCAATACTCAAAAACTAATGAAATTCATATT
AATCTACTTCCATATGAAATTAAAAATGATAAAATGATTGCGAAAGGATTTTTTGGTGCA
AAAGCAAAAAGTTTTTCAATTGAATTTCTTCATCCAATGTCGACTGTTAGTTTTCTAGGC
CGTAATGTCTTTATTCCAAATAATGTTCGCAGTTATTTAAATGTCAAAGGATTTAAAGTT
AATTCTTCAGATTAA
>g12336.t1 Gene=g12336 Length=604
MRMRIRISKFAILCILVINLLLVFISWKYFTTENTLQRNNSYSEPSFSDIRLETTVKTSR
NRVHELKKFLHKSLTVVIRDFYHFDNDLKYGIDHLLNFLPELKILIVSDEQYPYPPINIF
TSIQNPNQTSKPSTLIYKENVQFLPLPIDITKSSSEMNPLTYIQTKYVLFLPDNFKLSNG
RQMFNRLIKSIDDENNRHERGIRKILIIPFASNQKHYNYCFQINADIQNWNIEYIVKNST
KNCDLYTGKHAILLETVLLHNFPQPFDSPFPEYFYLQAKFSNCKLKYSNETFLDGGKKLM
SSYHSRMKRKNLKKEQFKALYKKLQFKKVVKKYHFIPEDKTSLKSLKKNRGKGNNKLYNE
KNLKSNTNVKATSKDGREIDVLIEQLEVPSSFFQYSNRSAQVQINTDISYFGCEKNTKSC
IGQVYNEKPFYLYLNRHTPPCCLEKLKNIFKYVVEELENTGIRYWLDNKVLSDIVEFNDL
SNDAYEIDISFNVNDYNRSTAVRRCFDSRPFTDLAGYYWYKATDGHYLKIQYSKTNEIHI
NLLPYEIKNDKMIAKGFFGAKAKSFSIEFLHPMSTVSFLGRNVFIPNNVRSYLNVKGFKV
NSSD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g12336.t1 | PANTHER | PTHR13627:SF31 | FUKUTIN-RELATED PROTEIN | 3 | 595 | 1.6E-108 |
| 2 | g12336.t1 | PANTHER | PTHR13627 | FUKUTIN RELATED PROTEIN | 3 | 595 | 1.6E-108 |
| 5 | g12336.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 7 | g12336.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 30 | - |
| 6 | g12336.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 31 | 604 | - |
| 4 | g12336.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 10 | - |
| 3 | g12336.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 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 K19873 (fukutin-related protein [EC:2.7.8.-])
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.
