General information for g2011.t5
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.t5 | TSS | g2011.t5 | 14386707 | 14386707 |
| chr_3 | g2011 | g2011.t5 | isoform | g2011.t5 | 14386880 | 14389722 |
| chr_3 | g2011 | g2011.t5 | exon | g2011.t5.exon1 | 14386880 | 14386882 |
| chr_3 | g2011 | g2011.t5 | exon | g2011.t5.exon2 | 14386975 | 14389525 |
| chr_3 | g2011 | g2011.t5 | cds | g2011.t5.CDS1 | 14386975 | 14389525 |
| chr_3 | g2011 | g2011.t5 | exon | g2011.t5.exon3 | 14389579 | 14389722 |
| chr_3 | g2011 | g2011.t5 | cds | g2011.t5.CDS2 | 14389579 | 14389721 |
| chr_3 | g2011 | g2011.t5 | TTS | g2011.t5 | NA | NA |
Sequences
>g2011.t5 Gene=g2011 Length=2698
AAGATGGATTCGAATATTCAAAGAAATAAACAAAATCAAGCAAAGAAATTGATAGAAAAG
TATTTTTATCAGCTTACAGTTGGATGCAATGACGAAAAATGTCAAAACAAAAATTGTCTC
AGTTCAGGTTTAGTTGATAAATCGTTAACACCAAATCAAGCAGCAGTAAAAGCAATTCAA
TTATATGTTGAAGAAGTAGAGCTTTGTCCTAATATTCAGAGAAATAATGAGTTAATTCAA
ACAACTCAAGCATCGTCTCCTTCAATTACAGCAAATAATGAAGATATCGAAATGAATGAA
ACTATTGATAATTCATCATCCGAGCCACAAAATAGTTTACGATCTAATAAAAAATCAAGT
GACAATCTATCAACATCAAATGCTATCACACAGAGTGAAAATACAATGACAACTATGGCG
GCAGTAACTAGTAAAGAAATAAATTTTTTAGATGAAAACAAGCTCAATGAAATGATTGAC
CTTTGTGAAGAATCAAAAAATTATGCACCAATTATTCGGTCACTTGGTCATGTATTTTCA
AATAAAGAATCTGTACTCCAAAGTTTTCAGCGTAAAGCAAAAAGCTCCATTGATGTTATT
TTAGATAGAGTACAGCAACCTAGTGATATAAAAACTATGAAGAAAGAAGATATTCGCAGA
TTAGAAGATGATGAAAAGGATGAAGATTCGAAAATGGATTGTGAAGAAAATGATGAGAAA
GAGCCCTCTTACACTTTAGTTGACTTGGAAAGTCTACGAAGAAGTTTTAAACGTTTGTAT
GAAAAAAATTCACAAGCCTTTGAGGCATTGGACAATGCAATACAGAGCTTAGCTACGTTA
ATTCATTTAGATTTGAGATTAATGCGAGATAAAGAACAATTTGAAGAAATTCTGTATTGC
ATTGTGATATTATTTGAAATTTTTCAAATTGGCTCTAATATGCTCGAGCAATCAATTATA
CGAACACTTTCATCAACAGTTGCACTTCCTGTGTGGGCTCAAGCACGACTTGCACATATA
TGGAGTGTACATTGTCAAGATGGATTGCGAACTATTTTATTATGTTTGCAACAAATAATT
ACGCTTCAAGTTATTGCAAATACATACCATCGAGATTTTCATGTAAATGATAACGAAATA
ATTTCAAATGCAACCAAAGTCATGAACATTCTTTTTTGTGCAAACCTTCTTGCAAGTGAA
AAAATTGAGACATCTAAATTTATACCAGAATGTTCAAAAAATTCTAAAAGCGACACATCA
AGTTCTTCATTGACTGACGATAATGATGAACAGGATGATGAAGATTATAGTTCGATTCTT
TATAATTCAACTGCAAGTAAAAATATCAAAGTTTATCAAGATCCACTTATGAAAGAGCTT
AATATTTCGGTTTTTGATGTCTGTGAGCCATTGATTCCTTATGAAGAATTTCAAAATGAA
CCTTTATGTGATGCAATTGAAACTGATGAAGATTACATGCGCTATCGAAATTTGGTTTAC
AATGAAAGTTCGTTGTCATATGGTTCAAATAAGAAATTTAGTTTTATGGTTTTTCCGTTT
CTTCTTACACCATCTGCTAAAACTTTATCACTTTTCTTCGATAGTCGAGTGAAAATGTAC
ACTGAACGAAGAACAACATTCATTAACATGGCATACCTTGGTGCACAAGCAATTCAAAAT
CCATATTTAAAGCTTAAAATTCGTAGAGATGCAATTATAGATGATGCGCTTGCTGAACTT
GAAATGGTAGCGATGACAAATCCAAAAGATCTCAAGAAACAAATATTTATTGAATTTGAT
GGTGAACAAGGAATTGACGAAGGTGGTTTAACCAAGGAATTTTTCCAACTCATCTGTGAG
GCAATATTTAATCCTGATTATGGCATGTTTGTTACAAATGAAGATACTCAAACTTGTTGG
TTCAACTCTTTTTCATTTGAAAATGAAGCTCAATTTACATTAATTGGTATTGTCTTAGGT
CTCGCCATTTATAATAGTGTCATCTTACCTCTAAACTTTCCTATGGTAGTCTATAAAAAA
CTTCTCAATGTACGTGGAAGTTGGCGTGATCTACAAGACTGGAATCCGATGATATATAAT
AGCTTAAAAGCGATTTTAGATTACACTGAACCTGATATGGAAGAAGTTTTTGCTCAAACT
TTTGAAATTGGTTATGAGAATGTTTTTGGTGCACCTCTCAAGCATTGTTTAAAAAAAGAT
GGTGAAAATATACAAGTAAATCAACAGAATAAATATGAATTTGTTGAACTTTATGCTGAT
TTTCTACTCACTCAAAGTATAGAAAAACAATTCAAGGCGTTTAGAAAAGGCTTTCAGATG
GTAACTGATGAGAGTCCATTGCAATTGCTTTTTCGGCCTGAAGAAATTGAATTATTGGTT
TGTGGTTCAAAGAACTTTGATTTTGATGAGTTAGAAAAATCAACGGAATATGAAGCAGGC
TATACAGCTGAGACCGAAATAATTAAACATTTCTGGAGCATTGTTCATGCACTGCCATTA
GAGTCAAAACAAAAACTTCTTCAATTCACTACTGGATCAAATCGGGTACCAGTAGGTGGC
CTTAGCAAATTAAAATTAGTCATTGCACGACATGGTCCAGATTGTGATCGTTTACCGACA
AGTCACACATGTTTTAATATTCTTCTTCTACCTGAATACAGTTCACGTGAAAAGTTAG
>g2011.t5 Gene=g2011 Length=898
MDSNIQRNKQNQAKKLIEKYFYQLTVGCNDEKCQNKNCLSSGLVDKSLTPNQAAVKAIQL
YVEEVELCPNIQRNNELIQTTQASSPSITANNEDIEMNETIDNSSSEPQNSLRSNKKSSD
NLSTSNAITQSENTMTTMAAVTSKEINFLDENKLNEMIDLCEESKNYAPIIRSLGHVFSN
KESVLQSFQRKAKSSIDVILDRVQQPSDIKTMKKEDIRRLEDDEKDEDSKMDCEENDEKE
PSYTLVDLESLRRSFKRLYEKNSQAFEALDNAIQSLATLIHLDLRLMRDKEQFEEILYCI
VILFEIFQIGSNMLEQSIIRTLSSTVALPVWAQARLAHIWSVHCQDGLRTILLCLQQIIT
LQVIANTYHRDFHVNDNEIISNATKVMNILFCANLLASEKIETSKFIPECSKNSKSDTSS
SSLTDDNDEQDDEDYSSILYNSTASKNIKVYQDPLMKELNISVFDVCEPLIPYEEFQNEP
LCDAIETDEDYMRYRNLVYNESSLSYGSNKKFSFMVFPFLLTPSAKTLSLFFDSRVKMYT
ERRTTFINMAYLGAQAIQNPYLKLKIRRDAIIDDALAELEMVAMTNPKDLKKQIFIEFDG
EQGIDEGGLTKEFFQLICEAIFNPDYGMFVTNEDTQTCWFNSFSFENEAQFTLIGIVLGL
AIYNSVILPLNFPMVVYKKLLNVRGSWRDLQDWNPMIYNSLKAILDYTEPDMEEVFAQTF
EIGYENVFGAPLKHCLKKDGENIQVNQQNKYEFVELYADFLLTQSIEKQFKAFRKGFQMV
TDESPLQLLFRPEEIELLVCGSKNFDFDELEKSTEYEAGYTAETEIIKHFWSIVHALPLE
SKQKLLQFTTGSNRVPVGGLSKLKLVIARHGPDCDRLPTSHTCFNILLLPEYSSREKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g2011.t5 | CDD | cd00078 | HECTc | 562 | 898 | 2.89624E-132 |
| 12 | g2011.t5 | Coils | Coil | Coil | 217 | 237 | - |
| 8 | g2011.t5 | Gene3D | G3DSA:1.10.286.60 | - | 8 | 71 | 1.6E-21 |
| 9 | g2011.t5 | Gene3D | G3DSA:3.90.1750.10 | Hect | 564 | 799 | 6.3E-85 |
| 10 | g2011.t5 | Gene3D | G3DSA:3.30.2160.10 | Hect | 684 | 765 | 6.3E-85 |
| 11 | g2011.t5 | Gene3D | G3DSA:3.30.2410.10 | Hect | 801 | 898 | 7.4E-34 |
| 20 | g2011.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 100 | 135 | - |
| 21 | g2011.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 216 | 238 | - |
| 4 | g2011.t5 | PANTHER | PTHR45622:SF39 | - | 14 | 213 | 2.1E-112 |
| 6 | g2011.t5 | PANTHER | PTHR45622 | UBIQUITIN-PROTEIN LIGASE E3A-RELATED | 14 | 213 | 2.1E-112 |
| 3 | g2011.t5 | PANTHER | PTHR45622:SF39 | - | 555 | 898 | 2.1E-112 |
| 5 | g2011.t5 | PANTHER | PTHR45622 | UBIQUITIN-PROTEIN LIGASE E3A-RELATED | 555 | 898 | 2.1E-112 |
| 1 | g2011.t5 | Pfam | PF16558 | Amino-terminal Zinc-binding domain of ubiquitin ligase E3A | 14 | 68 | 1.8E-15 |
| 2 | g2011.t5 | Pfam | PF00632 | HECT-domain (ubiquitin-transferase) | 616 | 898 | 6.9E-82 |
| 14 | g2011.t5 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 295 | - |
| 17 | g2011.t5 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 296 | 314 | - |
| 15 | g2011.t5 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 315 | 650 | - |
| 16 | g2011.t5 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 651 | 672 | - |
| 13 | g2011.t5 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 673 | 898 | - |
| 22 | g2011.t5 | ProSiteProfiles | PS50237 | HECT domain profile. | 586 | 898 | 87.6 |
| 19 | g2011.t5 | SMART | SM00119 | hect_3 | 584 | 898 | 1.5E-115 |
| 7 | g2011.t5 | SUPERFAMILY | SSF56204 | Hect, E3 ligase catalytic domain | 545 | 898 | 5.75E-108 |
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 transcript has been annotated with K10587 (ubiquitin-protein ligase E3 A)
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.
