General information for g10344.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Meckelin.
Parent gene
- The parent gene g10344 is located on chr_1: 8955414..8959072 (- 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 | g10344 | g10344.t1 | isoform | g10344.t1 | 8955414 | 8959072 |
| chr_1 | g10344 | g10344.t1 | exon | g10344.t1.exon1 | 8955414 | 8955578 |
| chr_1 | g10344 | g10344.t1 | cds | g10344.t1.CDS1 | 8955414 | 8955578 |
| chr_1 | g10344 | g10344.t1 | exon | g10344.t1.exon2 | 8955637 | 8955923 |
| chr_1 | g10344 | g10344.t1 | cds | g10344.t1.CDS2 | 8955637 | 8955923 |
| chr_1 | g10344 | g10344.t1 | exon | g10344.t1.exon3 | 8955984 | 8956284 |
| chr_1 | g10344 | g10344.t1 | cds | g10344.t1.CDS3 | 8955984 | 8956284 |
| chr_1 | g10344 | g10344.t1 | exon | g10344.t1.exon4 | 8956360 | 8956662 |
| chr_1 | g10344 | g10344.t1 | cds | g10344.t1.CDS4 | 8956360 | 8956662 |
| chr_1 | g10344 | g10344.t1 | exon | g10344.t1.exon5 | 8956906 | 8957577 |
| chr_1 | g10344 | g10344.t1 | cds | g10344.t1.CDS5 | 8956906 | 8957577 |
| chr_1 | g10344 | g10344.t1 | exon | g10344.t1.exon6 | 8957641 | 8957934 |
| chr_1 | g10344 | g10344.t1 | cds | g10344.t1.CDS6 | 8957641 | 8957934 |
| chr_1 | g10344 | g10344.t1 | exon | g10344.t1.exon7 | 8958024 | 8958664 |
| chr_1 | g10344 | g10344.t1 | cds | g10344.t1.CDS7 | 8958024 | 8958664 |
| chr_1 | g10344 | g10344.t1 | exon | g10344.t1.exon8 | 8958856 | 8959072 |
| chr_1 | g10344 | g10344.t1 | cds | g10344.t1.CDS8 | 8958856 | 8959072 |
| chr_1 | g10344 | g10344.t1 | TSS | g10344.t1 | NA | NA |
| chr_1 | g10344 | g10344.t1 | TTS | g10344.t1 | NA | NA |
Sequences
>g10344.t1 Gene=g10344 Length=2880
ATGCTCCAAAAAATCATTGTCATAATTGTGTTAATCGTCATTGCCCTAACATCATGCACC
ATCGGAAACGATGACGACGAGAGCTTCTATTATGCAAATAATAACAAATTTTTTGCCAAT
AATCGCAAAAGTTGTCAATTAAACTCAATTTTTGATGTTGATTATTTTAAATGTCGCCTA
TGTGATGGCAATTTTCATTTGATGGCAACGCGGCAAAAAAAACTATGTAGTTGTGATAAG
AACTCAACAGAGGTATTTGAGTATGATAACATCTTAAAAAGACCGATTTGCGAGAAAAAT
AGCAACAGTAAAAAGGAAGAGGAGGAGACAAAATGTTCAATTCGTTTTGTAAATGCCACA
AATTTCTCATCGATACGGAAGTCTGTGAGAGTGTTTAGACTTCCGCTAAATGAAAAGTGT
TTCTGTAATACAAAGAACAATGAAGATTATCGAGGCAGCTACTGCATTAAACAAGAGTTA
TTAAAGGACTTGAAAAATTACCAATTGTACAGAAATTTACCATTAACTCAAACACTTAAT
TTAAATTACGAGCTAAAGTTCATTGTGTTCTTTTGCAAAATTCTGCATAAACGCGATTAT
TGTAATTATCTTGCCAATATCTGTGTACTCACGCAATACGATCTTGACAAAAATGGACCG
TGTTACACATTCTATCAACAGCAAAGTCAGCAGCAACTTGGGAATATTGACGAGGGTGGA
AGCTATAGTAGTAGCTTCAATGAGGGCAATGAATTTGATGGCGGTGAAAAAATGAAACCA
TTTTTATTCTTTCGCGGCAGAAGATCGAACAAAAATCTATTTGACAAGTTCATTGACTTT
TCATACAACATTAATAATGCCAACAGTACAATAAACTTTACGATCCTTAATTATAATTTG
CATGGAAATTTAAGTGAAATGCGTGCAATGAAATTGAGCGATTTAGACTTATGCAATCAA
TACACAGCCCACGCAGAGAATGTGAAGTTTGCGAGAAATTTCTTTAGTAAATGCACAATA
AATTTGCGTGAGTATATTGCACTGCAGTCAAATACACGTTTTTCAACGCTATATCTAAAT
TATTATGAGAATCAAGCGAATTTTGTACAAACAGTGCCGATTTTAATAAGAAATGCTTTC
AAGGCCAATGAGGAGGACGACATTGAACGTTGGCAACTGGTGAAGAGATTCTTTCTAATC
GACACAACGTCGGGAATGATCAGTGGGAAAAACAATAATGATGACGAATATGATGACGAA
CTAAAATTCTATGAGCAATACACACAAATTAACTACGTAAAGTCCATCGAATTACGTTTT
CATCTCAGTGATGATGATGATGATGATGAAAATTCTGAGGAATTCAATAAAATTAATATT
CCACTACTTATAATCGAATACGGGTCGATGAACTTGACACAAATCGCTCAAATACTAAAG
TCATCAAACAACGTTGACGAATATCAACTATATAATGTTGACTTTCATTTAAAAATCAAA
TTCACCAAGCGGCCAAATTTAAATTTCTTCTTCCAAATAATCTTGCCAATTTTTATTCTC
ATCGCATTCTTTTACGCACTCATGTCTACATTCTTTTACAAGATATCGCAACAGAAATTG
GAATACGATCTCTCGATTTTATTGAATTTCATCATCAATCTCATGGCGAATATCTCTAAT
GCATTCTTTGTATTCATCTTAATATTTATTGCGTATGTCTATTTTGTGTATAAAAGTCAA
TCGACAATTGTAAAGATTATGTTACCGATTGAACGCGAGGAAGGAATGATTGAAATTTTA
TTTGCATTTGCGATAATTTTCAAGGTTGTGAAGCTACTTAAGCTCTTCTTTGATATGATC
ACGTTAGATATATTTTTCATTGATTGGGAGCGTCCGAAGGCTTTTAATACAAGTGATCAT
TTTCTTCATGGCTCTAACAAGTCGCATCCCGGAACACCTTCAATTACTTCAAGTCTAAAA
CCTACACTCTCATCATCGCCCTCACCAACAAATGATTGCGTATCAGCTTGGAGGAATTAT
TTTGTTGCAAATGAATGGCAAGAGTTGATTACTAAACGTAAAATTTCTGTTCAACTTCAT
GTTATTTTTGTCATTGTTTTTTTAATAATTTTTGGCTTCGAAAATCTTTCATCTACTGAT
TTTGGCTGGTTTCTGAATGCCACGCACCATGAAATAAGCAATGAAACTACAGTGGCTGAT
ATCACGAATGAAAATAGACTCTTGAAAGTAGCAACAGGTGCCATGATTTACTTATTTATT
TATATACTACAACGCATTTGGAATTTTCTTGTTTATGAACGCTTCATTGACAATTGTTTG
CAACAATTTATCGATGTCGTATCGATTGCCAACATTTCGGTGCTGATACTCATCAACAAT
TATGGGCATTACGTGCATGGTCGATCAGTACATGGACGAAGCGACATTGATACATTCAAT
ATGATACTTCAATTCAAACGAGAGGAGGAGAATTTGTGTGGTAATCGTGGACTGTTGCCA
CAAAGTGATCAACAAACTTATACAATTTTAGCGCCAAGAAATTTACGCTTGTTCTATGAA
AAATTAATAAGTCCAATACAGAATAATAAAAGCAATCACTATCATCAACAATATAATAAA
TTTGAACAAAATTTTGAAAAAACAATGGTGACATATCACAACATTAATCGCTTCTTTGCT
GCATTCATTGATCATGCACTAAAAGATGTGGATTACATGATCAAGGAAAAAAATCTCTTT
GAAAAACTTTTCGACTGTGAATTGGAATCATCTAACATTAATAACGAGTCGAAAGGCATA
TTTTATATTGATAATGGTCATTCATTTGATAAAGGTAACAACATACTTTATGATGCTTAG
>g10344.t1 Gene=g10344 Length=959
MLQKIIVIIVLIVIALTSCTIGNDDDESFYYANNNKFFANNRKSCQLNSIFDVDYFKCRL
CDGNFHLMATRQKKLCSCDKNSTEVFEYDNILKRPICEKNSNSKKEEEETKCSIRFVNAT
NFSSIRKSVRVFRLPLNEKCFCNTKNNEDYRGSYCIKQELLKDLKNYQLYRNLPLTQTLN
LNYELKFIVFFCKILHKRDYCNYLANICVLTQYDLDKNGPCYTFYQQQSQQQLGNIDEGG
SYSSSFNEGNEFDGGEKMKPFLFFRGRRSNKNLFDKFIDFSYNINNANSTINFTILNYNL
HGNLSEMRAMKLSDLDLCNQYTAHAENVKFARNFFSKCTINLREYIALQSNTRFSTLYLN
YYENQANFVQTVPILIRNAFKANEEDDIERWQLVKRFFLIDTTSGMISGKNNNDDEYDDE
LKFYEQYTQINYVKSIELRFHLSDDDDDDENSEEFNKINIPLLIIEYGSMNLTQIAQILK
SSNNVDEYQLYNVDFHLKIKFTKRPNLNFFFQIILPIFILIAFFYALMSTFFYKISQQKL
EYDLSILLNFIINLMANISNAFFVFILIFIAYVYFVYKSQSTIVKIMLPIEREEGMIEIL
FAFAIIFKVVKLLKLFFDMITLDIFFIDWERPKAFNTSDHFLHGSNKSHPGTPSITSSLK
PTLSSSPSPTNDCVSAWRNYFVANEWQELITKRKISVQLHVIFVIVFLIIFGFENLSSTD
FGWFLNATHHEISNETTVADITNENRLLKVATGAMIYLFIYILQRIWNFLVYERFIDNCL
QQFIDVVSIANISVLILINNYGHYVHGRSVHGRSDIDTFNMILQFKREEENLCGNRGLLP
QSDQQTYTILAPRNLRLFYEKLISPIQNNKSNHYHQQYNKFEQNFEKTMVTYHNINRFFA
AFIDHALKDVDYMIKEKNLFEKLFDCELESSNINNESKGIFYIDNGHSFDKGNNILYDA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g10344.t1 | PANTHER | PTHR21274 | UNCHARACTERIZED | 17 | 951 | 6.3E-169 |
| 1 | g10344.t1 | Pfam | PF09773 | Meckelin (Transmembrane protein 67) | 137 | 951 | 5.7E-164 |
| 19 | g10344.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 22 | - |
| 20 | g10344.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 21 | g10344.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 17 | - |
| 28 | g10344.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 22 | - |
| 16 | g10344.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 23 | 508 | - |
| 27 | g10344.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 509 | 533 | - |
| 12 | g10344.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 534 | 553 | - |
| 23 | g10344.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 554 | 575 | - |
| 15 | g10344.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 576 | 594 | - |
| 26 | g10344.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 595 | 617 | - |
| 13 | g10344.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 618 | 694 | - |
| 25 | g10344.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 695 | 713 | - |
| 18 | g10344.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 714 | 749 | - |
| 24 | g10344.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 750 | 771 | - |
| 14 | g10344.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 772 | 782 | - |
| 22 | g10344.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 783 | 802 | - |
| 17 | g10344.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 803 | 959 | - |
| 11 | g10344.t1 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 19 | 5.0 |
| 10 | g10344.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 22 | - |
| 9 | g10344.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 24 | - |
| 8 | g10344.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 22 | - |
| 6 | g10344.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 511 | 533 | - |
| 4 | g10344.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 546 | 575 | - |
| 5 | g10344.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 595 | 617 | - |
| 7 | g10344.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 696 | 713 | - |
| 3 | g10344.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 750 | 772 | - |
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:0060271 | cilium assembly | BP |
| GO:0036038 | MKS complex | CC |
KEGG
Orthology
- This transcript has been annotated with K19348 (meckelin)
Pathway
This gene does not belong to any 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