General information for g10043.t3
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10043 is located on chr_1: 7015096..7016077 (+ 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 | g10043 | g10043.t3 | isoform | g10043.t3 | 7006721 | 7016077 |
| chr_1 | g10043 | g10043.t3 | TSS | g10043.t3 | 7006721 | 7006721 |
| chr_1 | g10043 | g10043.t3 | exon | g10043.t3.exon1 | 7006721 | 7006970 |
| chr_1 | g10043 | g10043.t3 | exon | g10043.t3.exon2 | 7014465 | 7014708 |
| chr_1 | g10043 | g10043.t3 | cds | g10043.t3.CDS1 | 7014484 | 7014708 |
| chr_1 | g10043 | g10043.t3 | exon | g10043.t3.exon3 | 7014764 | 7015012 |
| chr_1 | g10043 | g10043.t3 | cds | g10043.t3.CDS2 | 7014764 | 7015012 |
| chr_1 | g10043 | g10043.t3 | exon | g10043.t3.exon4 | 7015090 | 7015178 |
| chr_1 | g10043 | g10043.t3 | cds | g10043.t3.CDS3 | 7015090 | 7015178 |
| chr_1 | g10043 | g10043.t3 | exon | g10043.t3.exon5 | 7015280 | 7015470 |
| chr_1 | g10043 | g10043.t3 | cds | g10043.t3.CDS4 | 7015280 | 7015470 |
| chr_1 | g10043 | g10043.t3 | exon | g10043.t3.exon6 | 7015551 | 7016077 |
| chr_1 | g10043 | g10043.t3 | cds | g10043.t3.CDS5 | 7015551 | 7015759 |
| chr_1 | g10043 | g10043.t3 | TTS | g10043.t3 | 7016079 | 7016079 |
Sequences
>g10043.t3 Gene=g10043 Length=1550
CAGTTTGCTTTTGAGACTCGACTAAACAACATCGAGTACGCGCGTGTTCGTTGAGTTATT
TTTTTATTTTTCTTAACTTGCTAATTAGTACGTGTGTGTTAAAAATTATTAAAGCTCAAG
GAGCATAGAGAAACTCGTAAAAATAAGATTACCAATTAAAAAACATACGAAATAAGTCAA
GGAAAGCGCAAAATCGAAAGAAAGAAGTGCAAAATTGTTGAAAATAAATTTCCGTAGTTT
TTGAAAAATGATGTAAAGCGATTTCGATGATGGAAGTTCATACTGCTTTAGTGCTTACCG
TGCAACTTATTGCTCTATTCTCGATCGCAGGCGCTCTGTTACTCTACTTGCTATGCAAAG
TTAAGGGTTCACGAAATGTGACTCTAGATCCACGTTGTGGTTCCATTCTAATTACATCTG
CAGATACGGCACTCGGCCTTCAACTGTCGACCTATCTCGCATCAAAAGGATGTCGTGTCT
TTGCTGGCATGAAGGATCCAGTTGACTCGTTACCAGCAAAATTGCTGAAAGGCTGGATGA
AAGCTCGCGAGAATGCTTTAGATTTGGAAAGTGAGTGTGTCATTGGAACAATAGTGCCAC
TAAAAGTTGATGTTACAAAGGAAGATGTTATAAGAGAAGCTGCTGAGAAAATGGGCGCTC
ATCTTAATGCAAGCGAGCGAGGAATACTTGCAGTAGTCAACACTGCTGGAAGTATTTTCC
GTGGTCGCATGGACTCACAGGAGCTACACGAATGGGAATGCATGTTCAAACACAACGTTT
TGGGTTGTCTAAGAGTTGCACGTGGATTCATTGGTTTATTGCGACCAACAAGAGGTCGAT
TCATCTTCCTGGGATCAGGCAGTACCGGCGACGGGTTATTAGCTTATACAGCATCAAAGA
ATGCTGTTGAGGGTACAGCTTGTGCGTTACGCGATGAATTAAAACCCTATGGCGTTTCAG
TTGTTACCTTGGATACCACAGGTGTTGCTGCAGAAACTTTATATAAATCTCCAATTCCAT
TCACAATCTCTGATATTGAAGGCATTCCTACTCAATATTCGGCTGAAGTCTTGACACACT
CTTCACTACAAGTCATCGAAAGGGCATTATTTGATCCACGACCATATGATAGCTATTCAC
TCTCTGTGCCACAAAATAAATTTATATGTAATTTACCCTGTCGTTCTGAATTTGTTCGTT
CTAGAAATCACTCTTTTATTCAAAAAGTCTAAGTACGATGACAATGCGTGAATGAAGTGA
AGATATATTAACTTCTTCTTTTTTTTCATTCACCACTTTAAGTGCTTTCTTTTATATATA
TGTAATGTACATACAATTTATTATAATTTTTTGTTCGCACTTGAAATTTTAATTTTAATA
TTTTAAAAGAGATGATTTTTCTTCCATTTGTCATAAGATGAGGAAATAATGATGATGTCA
AATGGTAGAAATAAGAGAGTTTGCATAATGATTTCTTTTGAAAATCAGTTACATTCTATG
AAAATTTTTTTAATTTTCTTAACAAGACAATAAAATCTTTAAAAATAAAA
>g10043.t3 Gene=g10043 Length=320
MEVHTALVLTVQLIALFSIAGALLLYLLCKVKGSRNVTLDPRCGSILITSADTALGLQLS
TYLASKGCRVFAGMKDPVDSLPAKLLKGWMKARENALDLESECVIGTIVPLKVDVTKEDV
IREAAEKMGAHLNASERGILAVVNTAGSIFRGRMDSQELHEWECMFKHNVLGCLRVARGF
IGLLRPTRGRFIFLGSGSTGDGLLAYTASKNAVEGTACALRDELKPYGVSVVTLDTTGVA
AETLYKSPIPFTISDIEGIPTQYSAEVLTHSSLQVIERALFDPRPYDSYSLSVPQNKFIC
NLPCRSEFVRSRNHSFIQKV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10043.t3 | Gene3D | G3DSA:3.40.50.720 | - | 45 | 298 | 9.3E-29 |
| 2 | g10043.t3 | PANTHER | PTHR43313:SF36 | GH26015P | 2 | 234 | 1.1E-38 |
| 3 | g10043.t3 | PANTHER | PTHR43313 | SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 9C | 2 | 234 | 1.1E-38 |
| 1 | g10043.t3 | Pfam | PF00106 | short chain dehydrogenase | 46 | 243 | 2.5E-18 |
| 8 | g10043.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 9 | g10043.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 29 | - |
| 7 | g10043.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 30 | 320 | - |
| 5 | g10043.t3 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 45 | 242 | 1.49E-24 |
| 4 | g10043.t3 | 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
## [1] "No matching GO terms"KEGG
Orthology
- This transcript has been annotated with K00019 (3-hydroxybutyrate dehydrogenase)
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