General information for g14251.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-binding cassette sub-family D member.
Parent gene
- The parent gene g14251 is located on chr_1: 35856487..35857276 (+ 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 | g14251 | g14251.t4 | isoform | g14251.t4 | 35856065 | 35857276 |
| chr_1 | g14251 | g14251.t4 | exon | g14251.t4.exon1 | 35856065 | 35856406 |
| chr_1 | g14251 | g14251.t4 | cds | g14251.t4.CDS1 | 35856079 | 35856406 |
| chr_1 | g14251 | g14251.t4 | exon | g14251.t4.exon2 | 35856468 | 35856724 |
| chr_1 | g14251 | g14251.t4 | cds | g14251.t4.CDS2 | 35856468 | 35856724 |
| chr_1 | g14251 | g14251.t4 | exon | g14251.t4.exon3 | 35856788 | 35857017 |
| chr_1 | g14251 | g14251.t4 | cds | g14251.t4.CDS3 | 35856788 | 35857017 |
| chr_1 | g14251 | g14251.t4 | exon | g14251.t4.exon4 | 35857072 | 35857276 |
| chr_1 | g14251 | g14251.t4 | cds | g14251.t4.CDS4 | 35857072 | 35857276 |
| chr_1 | g14251 | g14251.t4 | TTS | g14251.t4 | 35857466 | 35857466 |
| chr_1 | g14251 | g14251.t4 | TSS | g14251.t4 | NA | NA |
Sequences
>g14251.t4 Gene=g14251 Length=1034
GGTCCGGTACAGGCATGATTATGGTATCACTACCAATTTTAACTACAAGCCATTTGAGTA
GTGATGAAGATCAAAAGAGCAACACAGGAAGTAAAGTTAGTCAACGTACTGAATATTTTA
CAACTGCTAGTAACTTACTTAAATCTGGTGCTGATGCTGTTGAGAGACTTATGTCTAGTT
ATAAAGAAATTGTAGAACTGGCAGGCTATACAAGTCGTGTTTCAGAAATGTTTCAAGTCT
TTGAAGAAGTATCACAGGGTATTTATAAAAAGACAACAGTTGATGATGAAACAGCTACAG
AAGGAATACTTGAATTTAAAAATGGTCAACCAGTTGCTAATGGCAAAATATTTTATGATA
CAGAAAATATGTCTATAACACTTAAAAATGTTCCAGTTGTGACTCCAAATTGCGATATTG
TTGTTCCAAATTTAACATTAACAATCAGACCTGGCATGCATTTACTTATAACTGGGCCAA
ATGGCTGTGGAAAATCGAGTTTATTCCGAATTTTAAGTGGTCTTTGGCCTATTTATAATG
GAGAGCTTCATTTGCCAAAAACATGTGAGGATAAACCATGCATGTTCTACATTCCACAAC
GACCATACATGTCGATTGGAAGTTTGAGAGAGCAAATCATTTATCCTGATTCATTAGATG
ACATGATAGCTAAAAATGTAACAGAAGAAAAGCTAAGGGAAATTTTAAAAATGGTTGCAC
TTGAGCACATTGCTATTCGTGACAGTTTTGATGAAGTTCGTGATTGGAAAGATACTTTAA
GTGGCGGTGAAAAACAAAGAATGGCTATTGCAAGATTATTCTATCATAAACCACAATATG
CCCTCCTCGATGAGTGTACCAGTGCTGTTTCTATTGATGTTGAAAGCTCAATTTATGAAA
CAGCTAAAAATATGGGTATAACTTTGCTTACGATCACACATCGACCTACTCTTTGGAAAT
TCCATACCAATATATTGAAATTTGATGGAATGGGAGGATGGATTTTTGAGCCATTGAATG
AAAATGAACATTAG
>g14251.t4 Gene=g14251 Length=339
MIMVSLPILTTSHLSSDEDQKSNTGSKVSQRTEYFTTASNLLKSGADAVERLMSSYKEIV
ELAGYTSRVSEMFQVFEEVSQGIYKKTTVDDETATEGILEFKNGQPVANGKIFYDTENMS
ITLKNVPVVTPNCDIVVPNLTLTIRPGMHLLITGPNGCGKSSLFRILSGLWPIYNGELHL
PKTCEDKPCMFYIPQRPYMSIGSLREQIIYPDSLDDMIAKNVTEEKLREILKMVALEHIA
IRDSFDEVRDWKDTLSGGEKQRMAIARLFYHKPQYALLDECTSAVSIDVESSIYETAKNM
GITLLTITHRPTLWKFHTNILKFDGMGGWIFEPLNENEH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g14251.t4 | CDD | cd03223 | ABCD_peroxisomal_ALDP | 121 | 329 | 6.90447E-91 |
| 5 | g14251.t4 | Gene3D | G3DSA:3.40.50.300 | - | 112 | 331 | 6.8E-43 |
| 2 | g14251.t4 | PANTHER | PTHR11384 | ATP-BINDING CASSETTE, SUB-FAMILY D MEMBER | 1 | 338 | 5.6E-142 |
| 3 | g14251.t4 | PANTHER | PTHR11384:SF13 | PEROXISOMAL MEMBRANE PROTEIN RELATED | 1 | 338 | 5.6E-142 |
| 1 | g14251.t4 | Pfam | PF00005 | ABC transporter | 139 | 283 | 9.2E-22 |
| 7 | g14251.t4 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 8 | g14251.t4 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 9 | g14251.t4 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 11 | - |
| 10 | g14251.t4 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 16 | - |
| 6 | g14251.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 339 | - |
| 12 | g14251.t4 | ProSitePatterns | PS00211 | ABC transporters family signature. | 255 | 269 | - |
| 14 | g14251.t4 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 121 | 339 | 13.379 |
| 13 | g14251.t4 | SMART | SM00382 | AAA_5 | 146 | 324 | 1.0E-5 |
| 4 | g14251.t4 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 114 | 324 | 4.3E-38 |
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:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis 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.
