General information for g5011.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ATP-binding cassette sub-family G member 4.
Parent gene
- The parent gene g5011 is located on chr_2: 6432849..6438838 (- 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 | g5011 | g5011.t2 | TTS | g5011.t2 | 6425949 | 6425949 |
| chr_2 | g5011 | g5011.t2 | isoform | g5011.t2 | 6426849 | 6427997 |
| chr_2 | g5011 | g5011.t2 | exon | g5011.t2.exon1 | 6426849 | 6427507 |
| chr_2 | g5011 | g5011.t2 | cds | g5011.t2.CDS1 | 6426849 | 6427376 |
| chr_2 | g5011 | g5011.t2 | exon | g5011.t2.exon2 | 6427574 | 6427667 |
| chr_2 | g5011 | g5011.t2 | exon | g5011.t2.exon3 | 6427850 | 6427922 |
| chr_2 | g5011 | g5011.t2 | exon | g5011.t2.exon4 | 6427990 | 6427997 |
| chr_2 | g5011 | g5011.t2 | TSS | g5011.t2 | NA | NA |
Sequences
>g5011.t2 Gene=g5011 Length=834
CCTACGACTGGTCTAGATAGTTCTTGTTCAACTTATACAATAAGATTACTTCATAATCTT
GCAAGAGAAGGAAGAACAATTGTTTGTACAATACATCAACCATCAGCAACAATTTATGAG
TTGTTCGATTTGGTTTATGTTCTAGCTGAAGGACATTGCATTTATCAGGGTTCAGTTCAA
AATACTGTGCCATATCTAGCACAACAAGGGTTTCAATGTCCACAATTTCATAATCCAGCT
GATTATCTTCTTGAAGTCGCAAATGGAGAATACGGAAATTTCACATATCAACTTGCGAAA
GCAGCCATGAGTGAACAGTGGAGAACGTCAACAAACACTGTCTACATTCGCGATGAGTAT
GAATTAAGTTCTGACAAGAATGATGATGAAATATCTAATGATACGGACGAGAAACGAATA
AGTGTTTATACAAAAACGAGTGAAAGTGAGAACTTATCTGGCAAACTGAGTTTCAAATCA
AGTATTATTAAAACGACGCCATCAGAATTAACACGTTTATGGATTCTTATTTCACGATGC
AATGTTTTATTGTTTAGAGATTGGACAGTCACGCATCTTAAGCTTCTTTTACATTTCATT
AGCGGAATAATAATTGGACTTTACTTTGGTGATGCAGGTGTTAATGCAAATAAGAGTATA
TCGAATGTTGGATTTCTTATAATAAATGCAGTTTACTTATGGTACACAACAATGATGCCT
GGCGTATTACGTTTTCCTGCAGAAATATCAATATTAAAGAAAGAAGTTTTTAATAATTGG
TATAAATTGCGTACATATTATATTGCTACACTTATTACATCAACGCCTATTCAT
>g5011.t2 Gene=g5011 Length=176
MSEQWRTSTNTVYIRDEYELSSDKNDDEISNDTDEKRISVYTKTSESENLSGKLSFKSSI
IKTTPSELTRLWILISRCNVLLFRDWTVTHLKLLLHFISGIIIGLYFGDAGVNANKSISN
VGFLIINAVYLWYTTMMPGVLRFPAEISILKKEVFNNWYKLRTYYIATLITSTPIH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g5011.t2 | PANTHER | PTHR48041 | ABC TRANSPORTER G FAMILY MEMBER 28 | 30 | 176 | 1.5E-54 |
| 3 | g5011.t2 | PANTHER | PTHR48041:SF32 | PROTEIN WHITE-LIKE PROTEIN | 30 | 176 | 1.5E-54 |
| 1 | g5011.t2 | Pfam | PF01061 | ABC-2 type transporter | 70 | 175 | 5.4E-13 |
| 6 | g5011.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 90 | - |
| 10 | g5011.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 91 | 108 | - |
| 8 | g5011.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 109 | 113 | - |
| 9 | g5011.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 114 | 133 | - |
| 7 | g5011.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 134 | 176 | - |
| 5 | g5011.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 108 | - |
| 4 | g5011.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 123 | 145 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5011/g5011.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5011.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016020 | membrane | CC |
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.
