General information for g2011.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ubiquitin-protein ligase E3A.
Parent gene
- The parent gene g2011 is located on chr_3: 14386975..14389722 (+ 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_3 | g2011 | g2011.t1 | TSS | g2011.t1 | 14386707 | 14386707 |
| chr_3 | g2011 | g2011.t1 | isoform | g2011.t1 | 14386975 | 14389722 |
| chr_3 | g2011 | g2011.t1 | exon | g2011.t1.exon1 | 14386975 | 14389525 |
| chr_3 | g2011 | g2011.t1 | cds | g2011.t1.CDS1 | 14386975 | 14389525 |
| chr_3 | g2011 | g2011.t1 | exon | g2011.t1.exon2 | 14389579 | 14389647 |
| chr_3 | g2011 | g2011.t1 | cds | g2011.t1.CDS2 | 14389579 | 14389647 |
| chr_3 | g2011 | g2011.t1 | exon | g2011.t1.exon3 | 14389706 | 14389722 |
| chr_3 | g2011 | g2011.t1 | cds | g2011.t1.CDS3 | 14389706 | 14389722 |
| chr_3 | g2011 | g2011.t1 | TTS | g2011.t1 | NA | NA |
Sequences
>g2011.t1 Gene=g2011 Length=2637
ATGGATTCGAATATTCAAAGAAATAAACAAAATCAAGCAAAGAAATTGATAGAAAAGTAT
TTTTATCAGCTTACAGTTGGATGCAATGACGAAAAATGTCAAAACAAAAATTGTCTCAGT
TCAGGTTTAGTTGATAAATCGTTAACACCAAATCAAGCAGCAGTAAAAGCAATTCAATTA
TATGTTGAAGAAGTAGAGCTTTGTCCTAATATTCAGAGAAATAATGAGTTAATTCAAACA
ACTCAAGCATCGTCTCCTTCAATTACAGCAAATAATGAAGATATCGAAATGAATGAAACT
ATTGATAATTCATCATCCGAGCCACAAAATAGTTTACGATCTAATAAAAAATCAAGTGAC
AATCTATCAACATCAAATGCTATCACACAGAGTGAAAATACAATGACAACTATGGCGGCA
GTAACTAGTAAAGAAATAAATTTTTTAGATGAAAACAAGCTCAATGAAATGATTGACCTT
TGTGAAGAATCAAAAAATTATGCACCAATTATTCGGTCACTTGGTCATGTATTTTCAAAT
AAAGAATCTGTACTCCAAAGTTTTCAGCGTAAAGCAAAAAGCTCCATTGATGTTATTTTA
GATAGAGTACAGCAACCTAGTGATATAAAAACTATGAAGAAAGAAGATATTCGCAGATTA
GAAGATGATGAAAAGGATGAAGATTCGAAAATGGATTGTGAAGAAAATGATGAGAAAGAG
CCCTCTTACACTTTAGTTGACTTGGAAAGTCTACGAAGAAGTTTTAAACGTTTGTATGAA
AAAAATTCACAAGCCTTTGAGGCATTGGACAATGCAATACAGAGCTTAGCTACGTTAATT
CATTTAGATTTGAGATTAATGCGAGATAAAGAACAATTTGAAGAAATTCTGTATTGCATT
GTGATATTATTTGAAATTTTTCAAATTGGCTCTAATATGCTCGAGCAATCAATTATACGA
ACACTTTCATCAACAGTTGCACTTCCTGTGTGGGCTCAAGCACGACTTGCACATATATGG
AGTGTACATTGTCAAGATGGATTGCGAACTATTTTATTATGTTTGCAACAAATAATTACG
CTTCAAGTTATTGCAAATACATACCATCGAGATTTTCATGTAAATGATAACGAAATAATT
TCAAATGCAACCAAAGTCATGAACATTCTTTTTTGTGCAAACCTTCTTGCAAGTGAAAAA
ATTGAGACATCTAAATTTATACCAGAATGTTCAAAAAATTCTAAAAGCGACACATCAAGT
TCTTCATTGACTGACGATAATGATGAACAGGATGATGAAGATTATAGTTCGATTCTTTAT
AATTCAACTGCAAGTAAAAATATCAAAGTTTATCAAGATCCACTTATGAAAGAGCTTAAT
ATTTCGGTTTTTGATGTCTGTGAGCCATTGATTCCTTATGAAGAATTTCAAAATGAACCT
TTATGTGATGCAATTGAAACTGATGAAGATTACATGCGCTATCGAAATTTGGTTTACAAT
GAAAGTTCGTTGTCATATGGTTCAAATAAGAAATTTAGTTTTATGGTTTTTCCGTTTCTT
CTTACACCATCTGCTAAAACTTTATCACTTTTCTTCGATAGTCGAGTGAAAATGTACACT
GAACGAAGAACAACATTCATTAACATGGCATACCTTGGTGCACAAGCAATTCAAAATCCA
TATTTAAAGCTTAAAATTCGTAGAGATGCAATTATAGATGATGCGCTTGCTGAACTTGAA
ATGGTAGCGATGACAAATCCAAAAGATCTCAAGAAACAAATATTTATTGAATTTGATGGT
GAACAAGGAATTGACGAAGGTGGTTTAACCAAGGAATTTTTCCAACTCATCTGTGAGGCA
ATATTTAATCCTGATTATGGCATGTTTGTTACAAATGAAGATACTCAAACTTGTTGGTTC
AACTCTTTTTCATTTGAAAATGAAGCTCAATTTACATTAATTGGTATTGTCTTAGGTCTC
GCCATTTATAATAGTGTCATCTTACCTCTAAACTTTCCTATGGTAGTCTATAAAAAACTT
CTCAATGTACGTGGAAGTTGGCGTGATCTACAAGACTGGAATCCGATGATATATAATAGC
TTAAAAGCGATTTTAGATTACACTGAACCTGATATGGAAGAAGTTTTTGCTCAAACTTTT
GAAATTGGTTATGAGAATGTTTTTGGTGCACCTCTCAAGCATTGTTTAAAAAAAGATGGT
GAAAATATACAAGTAAATCAACAGAATAAATATGAATTTGTTGAACTTTATGCTGATTTT
CTACTCACTCAAAGTATAGAAAAACAATTCAAGGCGTTTAGAAAAGGCTTTCAGATGGTA
ACTGATGAGAGTCCATTGCAATTGCTTTTTCGGCCTGAAGAAATTGAATTATTGGTTTGT
GGTTCAAAGAACTTTGATTTTGATGAGTTAGAAAAATCAACGGAATATGAAGCAGGCTAT
ACAGCTGAGACCGAAATAATTAAACATTTCTGGAGCATTGTTCATGCACTGCCATTAGAG
TCAAAACAAAAACTTCTTCAATTCACTACTGGATCAAATCGGGTACCAGTAGGTGGCCTT
AGCAAATTAAAATTAGTCATTGCACGACATGGTCCAGATTTTCACGTGAAAAGTTAG
>g2011.t1 Gene=g2011 Length=878
MDSNIQRNKQNQAKKLIEKYFYQLTVGCNDEKCQNKNCLSSGLVDKSLTPNQAAVKAIQL
YVEEVELCPNIQRNNELIQTTQASSPSITANNEDIEMNETIDNSSSEPQNSLRSNKKSSD
NLSTSNAITQSENTMTTMAAVTSKEINFLDENKLNEMIDLCEESKNYAPIIRSLGHVFSN
KESVLQSFQRKAKSSIDVILDRVQQPSDIKTMKKEDIRRLEDDEKDEDSKMDCEENDEKE
PSYTLVDLESLRRSFKRLYEKNSQAFEALDNAIQSLATLIHLDLRLMRDKEQFEEILYCI
VILFEIFQIGSNMLEQSIIRTLSSTVALPVWAQARLAHIWSVHCQDGLRTILLCLQQIIT
LQVIANTYHRDFHVNDNEIISNATKVMNILFCANLLASEKIETSKFIPECSKNSKSDTSS
SSLTDDNDEQDDEDYSSILYNSTASKNIKVYQDPLMKELNISVFDVCEPLIPYEEFQNEP
LCDAIETDEDYMRYRNLVYNESSLSYGSNKKFSFMVFPFLLTPSAKTLSLFFDSRVKMYT
ERRTTFINMAYLGAQAIQNPYLKLKIRRDAIIDDALAELEMVAMTNPKDLKKQIFIEFDG
EQGIDEGGLTKEFFQLICEAIFNPDYGMFVTNEDTQTCWFNSFSFENEAQFTLIGIVLGL
AIYNSVILPLNFPMVVYKKLLNVRGSWRDLQDWNPMIYNSLKAILDYTEPDMEEVFAQTF
EIGYENVFGAPLKHCLKKDGENIQVNQQNKYEFVELYADFLLTQSIEKQFKAFRKGFQMV
TDESPLQLLFRPEEIELLVCGSKNFDFDELEKSTEYEAGYTAETEIIKHFWSIVHALPLE
SKQKLLQFTTGSNRVPVGGLSKLKLVIARHGPDFHVKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g2011.t1 | CDD | cd00078 | HECTc | 562 | 875 | 3.14437E-114 |
| 12 | g2011.t1 | Coils | Coil | Coil | 217 | 237 | - |
| 8 | g2011.t1 | Gene3D | G3DSA:1.10.286.60 | - | 8 | 71 | 1.5E-21 |
| 9 | g2011.t1 | Gene3D | G3DSA:3.90.1750.10 | Hect | 564 | 799 | 6.1E-85 |
| 10 | g2011.t1 | Gene3D | G3DSA:3.30.2160.10 | Hect | 684 | 765 | 6.1E-85 |
| 11 | g2011.t1 | Gene3D | G3DSA:3.30.2410.10 | Hect | 801 | 877 | 1.6E-19 |
| 20 | g2011.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 100 | 135 | - |
| 21 | g2011.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 216 | 238 | - |
| 4 | g2011.t1 | PANTHER | PTHR45622:SF39 | - | 14 | 213 | 2.3E-97 |
| 6 | g2011.t1 | PANTHER | PTHR45622 | UBIQUITIN-PROTEIN LIGASE E3A-RELATED | 14 | 213 | 2.3E-97 |
| 3 | g2011.t1 | PANTHER | PTHR45622:SF39 | - | 555 | 873 | 2.3E-97 |
| 5 | g2011.t1 | PANTHER | PTHR45622 | UBIQUITIN-PROTEIN LIGASE E3A-RELATED | 555 | 873 | 2.3E-97 |
| 1 | g2011.t1 | Pfam | PF16558 | Amino-terminal Zinc-binding domain of ubiquitin ligase E3A | 14 | 68 | 1.8E-15 |
| 2 | g2011.t1 | Pfam | PF00632 | HECT-domain (ubiquitin-transferase) | 616 | 871 | 9.7E-68 |
| 14 | g2011.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 295 | - |
| 17 | g2011.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 296 | 314 | - |
| 15 | g2011.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 315 | 650 | - |
| 16 | g2011.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 651 | 672 | - |
| 13 | g2011.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 673 | 878 | - |
| 22 | g2011.t1 | ProSiteProfiles | PS50237 | HECT domain profile. | 586 | 864 | 75.262 |
| 19 | g2011.t1 | SMART | SM00119 | hect_3 | 584 | 877 | 1.9E-90 |
| 7 | g2011.t1 | SUPERFAMILY | SSF56204 | Hect, E3 ligase catalytic domain | 545 | 870 | 6.15E-93 |
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:0004842 | ubiquitin-protein transferase activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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