General information for g11969.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative DnaJ homolog subfamily C member 1.
Parent gene
- The parent gene g11969 is located on chr_1: 19963298..19964332 (- 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 | g11969 | g11969.t1 | isoform | g11969.t1 | 19961728 | 19963298 |
| chr_1 | g11969 | g11969.t1 | exon | g11969.t1.exon1 | 19961728 | 19962768 |
| chr_1 | g11969 | g11969.t1 | cds | g11969.t1.CDS1 | 19961728 | 19962768 |
| chr_1 | g11969 | g11969.t1 | exon | g11969.t1.exon2 | 19962834 | 19963298 |
| chr_1 | g11969 | g11969.t1 | cds | g11969.t1.CDS2 | 19962834 | 19963298 |
| chr_1 | g11969 | g11969.t1 | TSS | g11969.t1 | 19963384 | 19963384 |
| chr_1 | g11969 | g11969.t1 | TTS | g11969.t1 | NA | NA |
Sequences
>g11969.t1 Gene=g11969 Length=1506
ATGAAATTACTTTATTTTAGTGCTTTTATATTCCTCACTCAAGTGATATTGCCAGCAAAA
GCATGGGACAACGATGATCTTGAAATTTTCGATCTTGTAGAACTAGTCAATCAGAATTTT
TATGAAATGATGGGATTGAAACAAGATGCTTCATTATCAGAAATAAAAAGAGCCTTCCGT
AATCTTTCGATTATCATGCATCCAGATAAAAATGATGCTCCTGATGCCAATGAAAAATTT
CGAAATTTAGTTGCTGTCTATGAAGTGTTGAAAGATTCCACTAAACGTGAGAAATATGAC
AATGTTCTGAAAAATGGAATGCCTAATTGGCGATCAGCTGTTTATTATTATCGAAAAGCT
CGTAAAATGGGACTTGCTGAGGGCGCGATTCTTCTATTTGTCATCACAACAATTTGCCAA
TATTTTGTTTCATGGGGTGTATATTTAGAAAAAAAATATACAATGGCATCAATATTTGAG
TCAAAGGCCAAAAAAGTGAGAAAAGCTAATGTAAACATTGATTCAATATTAAATGAAATT
CCAAAACCGAGCATAAAAAATACTTTGCCTTTCCAAATACCTATTGGTATTTATCGTATG
ATTATGGGAACACCGTCAGCCATTAAAGAATCTGTGAATTTTATGTCAGAAGAACTTAAA
AAAGAACTTGAAAAGAAAAGACTAGAAAAAGAAGAGGAAGAGTTGCTTAAAAAATTAGAG
GCTGAAAAGCAAAGAGAAAAAGCAGAAAGAAAAGAAGGACTAAGAAAGCGAAAAGAGGAA
GCTGCTAAATTAATGGAAAAGACAGATGAAGAGCTTGCCAGATATTCTGCAACAATTATC
ACAAGAAAACCTGGCTATGAAGAAATTAAGAAAATTCCACTCAGTGGTGGTCTGTGGACG
GATGAGGATCTTAGTGAGTTAGCTCGCTTGACTAAAAAATATCCAGGAGGTACACAAGAT
CGATGGGAAATAATCGCAGAGACAATGAACAGAAATGTTAGTGAAGTCACATTTATGGCT
TATAAGTTAAAAGATAATGCTTACACAGCTCCAGGTGAAACTGATAAACTTGTTCAAAAT
ATTAATAAAGAACTTAGTAAAAAAACCAAAACTAAAGCGTCAGTTGAACAGTCATCAGAG
AAAAATTGGACACAAGAACAACAAAAAGCGCTTGAAGCTGCTATCCAAAAATATCCCAAG
AAAGGAAATGAAGATCGTTGGGCAAAAATTGCTAATAGTGTGCCAGGAAAAACAAAAGAA
GAATGTCAAGCACGTTATAAATATTTGGTTGATTTGTTAAAGAAACAAAAAGAAGCGAAA
GAGAGAGAAGAAAAGGCTGTTCAAGAAGAGGAGGAAGTGGTTGAAAATGTAATAGATGAG
CCTGAAGAAGAAGTCATAGAGCAAAAGCAAACTGGTGGAAAAAAGAAAAACAAACGAAAA
GAAAAGAAAAAGAATATCGATTATTATGCTGATAGTTATTCAGATGAAGATGATGTCAGT
GAATGA
>g11969.t1 Gene=g11969 Length=501
MKLLYFSAFIFLTQVILPAKAWDNDDLEIFDLVELVNQNFYEMMGLKQDASLSEIKRAFR
NLSIIMHPDKNDAPDANEKFRNLVAVYEVLKDSTKREKYDNVLKNGMPNWRSAVYYYRKA
RKMGLAEGAILLFVITTICQYFVSWGVYLEKKYTMASIFESKAKKVRKANVNIDSILNEI
PKPSIKNTLPFQIPIGIYRMIMGTPSAIKESVNFMSEELKKELEKKRLEKEEEELLKKLE
AEKQREKAERKEGLRKRKEEAAKLMEKTDEELARYSATIITRKPGYEEIKKIPLSGGLWT
DEDLSELARLTKKYPGGTQDRWEIIAETMNRNVSEVTFMAYKLKDNAYTAPGETDKLVQN
INKELSKKTKTKASVEQSSEKNWTQEQQKALEAAIQKYPKKGNEDRWAKIANSVPGKTKE
ECQARYKYLVDLLKKQKEAKEREEKAVQEEEEVVENVIDEPEEEVIEQKQTGGKKKNKRK
EKKKNIDYYADSYSDEDDVSE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 26 | g11969.t1 | CDD | cd06257 | DnaJ | 39 | 92 | 4.49621E-15 |
| 25 | g11969.t1 | CDD | cd00167 | SANT | 382 | 430 | 1.46394E-9 |
| 10 | g11969.t1 | Coils | Coil | Coil | 212 | 278 | - |
| 11 | g11969.t1 | Coils | Coil | Coil | 429 | 460 | - |
| 7 | g11969.t1 | Gene3D | G3DSA:1.10.287.110 | - | 35 | 113 | 1.0E-21 |
| 9 | g11969.t1 | Gene3D | G3DSA:1.10.10.60 | - | 295 | 355 | 4.2E-15 |
| 8 | g11969.t1 | Gene3D | G3DSA:1.10.10.60 | - | 381 | 429 | 2.9E-18 |
| 16 | g11969.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 439 | 501 | - |
| 20 | g11969.t1 | PANTHER | PTHR44653 | DNAJ HOMOLOG SUBFAMILY C MEMBER 1 | 9 | 440 | 1.6E-132 |
| 21 | g11969.t1 | PRINTS | PR00625 | DnaJ domain signature | 41 | 59 | 1.3E-12 |
| 23 | g11969.t1 | PRINTS | PR00625 | DnaJ domain signature | 59 | 74 | 1.3E-12 |
| 22 | g11969.t1 | PRINTS | PR00625 | DnaJ domain signature | 75 | 95 | 1.3E-12 |
| 2 | g11969.t1 | Pfam | PF00226 | DnaJ domain | 39 | 100 | 2.3E-20 |
| 1 | g11969.t1 | Pfam | PF00249 | Myb-like DNA-binding domain | 381 | 428 | 1.3E-9 |
| 29 | g11969.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 30 | g11969.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 31 | g11969.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 33 | g11969.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 21 | - |
| 28 | g11969.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 128 | - |
| 32 | g11969.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 129 | 149 | - |
| 27 | g11969.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 150 | 501 | - |
| 35 | g11969.t1 | ProSitePatterns | PS00636 | Nt-dnaJ domain signature. | 80 | 99 | - |
| 19 | g11969.t1 | ProSiteProfiles | PS50076 | dnaJ domain profile. | 39 | 103 | 18.273 |
| 17 | g11969.t1 | ProSiteProfiles | PS50090 | Myb-like domain profile. | 291 | 332 | 5.482 |
| 18 | g11969.t1 | ProSiteProfiles | PS51293 | SANT domain profile. | 378 | 438 | 10.107 |
| 13 | g11969.t1 | SMART | SM00271 | dnaj_3 | 38 | 95 | 1.7E-17 |
| 15 | g11969.t1 | SMART | SM00717 | sant | 295 | 346 | 9.8E-4 |
| 14 | g11969.t1 | SMART | SM00717 | sant | 379 | 432 | 5.2E-11 |
| 5 | g11969.t1 | SUPERFAMILY | SSF46565 | Chaperone J-domain | 38 | 129 | 5.23E-21 |
| 4 | g11969.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 297 | 348 | 3.29E-8 |
| 3 | g11969.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 379 | 432 | 2.92E-11 |
| 6 | g11969.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 34 | g11969.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 24 | g11969.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 21 | - |
| 12 | g11969.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 125 | 147 | - |
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 K09521 (DnaJ homolog subfamily C member 1)
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.
