General information for g7796.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Vitamin K-dependent gamma-carboxylase.
Parent gene
- The parent gene g7796 is located on chr_2: 26147699..26150089 (- 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_2 | g7796 | g7796.t1 | isoform | g7796.t1 | 26145184 | 26148147 |
| chr_2 | g7796 | g7796.t1 | exon | g7796.t1.exon1 | 26145184 | 26146726 |
| chr_2 | g7796 | g7796.t1 | cds | g7796.t1.CDS1 | 26145184 | 26146726 |
| chr_2 | g7796 | g7796.t1 | exon | g7796.t1.exon2 | 26146800 | 26146965 |
| chr_2 | g7796 | g7796.t1 | cds | g7796.t1.CDS2 | 26146800 | 26146965 |
| chr_2 | g7796 | g7796.t1 | exon | g7796.t1.exon3 | 26147699 | 26147854 |
| chr_2 | g7796 | g7796.t1 | cds | g7796.t1.CDS3 | 26147699 | 26147854 |
| chr_2 | g7796 | g7796.t1 | exon | g7796.t1.exon4 | 26147988 | 26148147 |
| chr_2 | g7796 | g7796.t1 | cds | g7796.t1.CDS4 | 26147988 | 26148147 |
| chr_2 | g7796 | g7796.t1 | TSS | g7796.t1 | NA | NA |
| chr_2 | g7796 | g7796.t1 | TTS | g7796.t1 | NA | NA |
Sequences
>g7796.t1 Gene=g7796 Length=2025
ATGAAGCAACGGCACGGAAAAATTGCTGAAAGAATTTCAACAATTTTTAACTATTTTACT
GGTCATGATATCAGCAATTTTACGTCATATAATAAATTTACCAGTTTAATGTTTACAAGT
GTTGACGGCTCAAGTCTCGGTATCTGTAGAATGTTGTTTGGCATAATGATGCTTCTCGAT
ATTACAGAGGAGCGCGGCGGGAGTGATTTGGATTTAAGATGGGGAGAAATTAAGGACTGT
CGCTTTCCATTATTTTCATTCATAAAAGCTTTCTCGTTAGCCAAAATGGGTCTTATTTAT
TTTTTAATGTGGTTAGGCTGTATAGGAATTATTTTAGGATATAAATTTAAATCATCATGT
CTTGCCTTCGTCATAACATATTGGTATATTTTCCTTCTTGACAAAAGCTCATGGAATAAT
CATAGCTATTTATACGGATTGGTGGCCTTTATCTTTTTGTTCACAGATGCTCATCATTTT
TGTTCAATTGATTCATGGAGTTACAAACTCAACTCAACTTCCGTGCCATTTTGGAACTAT
TTTCTTCTAAAATTTCAATTTTTTATTCTTTATTTCATTGCTGGATTGAAAAAATTCTCT
TTTGAGTGGCTTAATGGTTATTCAATGACAAATTTGAGTCATCATTGGATATTTTCTCCG
TTTCGACTGCTGCTTGGTGCTGAGTTAACAAATCTTTTTATAATACACTGGTTTGCAACA
CTCTTCGATACATCCATTGTATTTTTTCTCATATACAAGAAAAGTCGTCGGATAGCAACA
TTTTTCGCGATAGCTTTTCATCTCATGAATTCTCGATTATTCAACATTGGTATGTTTCCA
TTTGTATGCGTTGTTCAGCTTCCTCTTTTTTATGAACACAATTGGCCACGCACGTTATGG
AGGAAATTAAAATGTTCATCATGTCGCCCTACTGATGAACGAAATGAGAAGAGAGTCGTT
TTGGAACGGACGTTGTCGTTTAGCAATGATACCAAGAAGATGGAGGAGGTGGAATTCAGA
AGCAAAAAGCGCTGCACGTTGAAAGAGAAATTTACGACTCTACTCATTTTAATTTATTGC
TGTCTGCAGCTTCTATTGCCCTATTCGCATTCACTAACAAAAGGCTATTCGAATTGGCGG
CATCTTTATGGCTACTCTTGGGACATGATGATGAGTGAATGGTCAACGATGCTCGTATCT
GTACGAATTGTTGACAATGGCAATAATAAACAACACTTTATGGAACCACTTGCCTTTTCT
GATTCCTATCGATGGACACAATATCCCGACATGACTTATCAATATGCTCAATGCATTAAT
CAAAATCTAATACGCGACTTTTATGAGAATCCAAACACACTGCTGTCGTCAGATAATTTT
TCAATTTATTTCGACATATGGAGCTCTTTAAATGGAAGATTTCAACAACGCGTTTATAAT
CCAACAGTTGATTTAGTTCGTAGCGAATGGCATCCATTTGTTGAACCATCATTTATTTTA
CCACTGTTGAGTGATCTAACGCATTTGAAACGTGAAATTGAAGAGATATCAAGAGAGGTT
TATTCATGGAGTAATAGTAGCGATTTGCTATTTATTGCCGACTTTCCTGGCTTATCGTTA
GATAATTATATACCGCCTATAATGGATAATGTAACGCTAACGGTGCTTAGTGGAATTGTT
AAATTTGAGCAGGAAAATGACACGAGTACGATAACGTTGTCACAAGGGCAAAGTATTCAC
GTTAAATCGGGTGTGTTTCATAAAGTGACGACAGTAAGTGACACACCTTCATACTTTCTC
TATACATACATCAACTCTACCCATCAGTTCAATGATGTACAAAACTCTGCCGAAAGCCAA
AAGCATGAGATGCAAACGAAGGCAATTTTTTCTACGCTCGCACAAGAATTGCGTGCACGT
TACGAAAATTACAAGAAATTCTTCTATCATGTCGCAAATTCTTTTCTTTTTGAATTTTAC
AGTGTGCCAATGCCAAGAAGATTACGAGAATTTCATGACATGTAA
>g7796.t1 Gene=g7796 Length=674
MKQRHGKIAERISTIFNYFTGHDISNFTSYNKFTSLMFTSVDGSSLGICRMLFGIMMLLD
ITEERGGSDLDLRWGEIKDCRFPLFSFIKAFSLAKMGLIYFLMWLGCIGIILGYKFKSSC
LAFVITYWYIFLLDKSSWNNHSYLYGLVAFIFLFTDAHHFCSIDSWSYKLNSTSVPFWNY
FLLKFQFFILYFIAGLKKFSFEWLNGYSMTNLSHHWIFSPFRLLLGAELTNLFIIHWFAT
LFDTSIVFFLIYKKSRRIATFFAIAFHLMNSRLFNIGMFPFVCVVQLPLFYEHNWPRTLW
RKLKCSSCRPTDERNEKRVVLERTLSFSNDTKKMEEVEFRSKKRCTLKEKFTTLLILIYC
CLQLLLPYSHSLTKGYSNWRHLYGYSWDMMMSEWSTMLVSVRIVDNGNNKQHFMEPLAFS
DSYRWTQYPDMTYQYAQCINQNLIRDFYENPNTLLSSDNFSIYFDIWSSLNGRFQQRVYN
PTVDLVRSEWHPFVEPSFILPLLSDLTHLKREIEEISREVYSWSNSSDLLFIADFPGLSL
DNYIPPIMDNVTLTVLSGIVKFEQENDTSTITLSQGQSIHVKSGVFHKVTTVSDTPSYFL
YTYINSTHQFNDVQNSAESQKHEMQTKAIFSTLAQELRARYENYKKFFYHVANSFLFEFY
SVPMPRRLREFHDM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g7796.t1 | CDD | cd02208 | cupin_RmlC-like | 555 | 603 | 0.00255723 |
| 5 | g7796.t1 | Gene3D | G3DSA:2.60.120.10 | Jelly Rolls | 548 | 629 | 8.9E-6 |
| 2 | g7796.t1 | PANTHER | PTHR12639 | VITAMIN K-DEPENDENT GAMMA-CARBOXYLASE | 14 | 660 | 6.8E-217 |
| 3 | g7796.t1 | PANTHER | PTHR12639:SF6 | VITAMIN K-DEPENDENT GAMMA-CARBOXYLASE | 14 | 660 | 6.8E-217 |
| 1 | g7796.t1 | Pfam | PF05090 | Vitamin K-dependent gamma-carboxylase | 48 | 501 | 1.6E-146 |
| 9 | g7796.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 97 | - |
| 14 | g7796.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 98 | 131 | - |
| 12 | g7796.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 132 | 142 | - |
| 18 | g7796.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 143 | 163 | - |
| 8 | g7796.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 164 | 174 | - |
| 13 | g7796.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 175 | 194 | - |
| 10 | g7796.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 195 | 231 | - |
| 16 | g7796.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 232 | 252 | - |
| 7 | g7796.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 253 | 272 | - |
| 15 | g7796.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 273 | 291 | - |
| 11 | g7796.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 292 | 350 | - |
| 17 | g7796.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 351 | 368 | - |
| 6 | g7796.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 369 | 674 | - |
| 25 | g7796.t1 | SMART | SM00752 | EBI_submitted | 38 | 295 | 7.9E-96 |
| 4 | g7796.t1 | SUPERFAMILY | SSF51182 | RmlC-like cupins | 553 | 605 | 1.06E-6 |
| 24 | g7796.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 97 | 131 | - |
| 21 | g7796.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 141 | 163 | - |
| 22 | g7796.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 176 | 195 | - |
| 23 | g7796.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 233 | 252 | - |
| 20 | g7796.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 273 | 295 | - |
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:0008488 | gamma-glutamyl carboxylase activity | MF |
| GO:0017187 | peptidyl-glutamic acid carboxylation | BP |
KEGG
Orthology
- This transcript has been annotated with K10106 (vitamin K-dependent gamma-carboxylase)
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. There were no conditions that were differentially expressed