General information for g14245.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-binding cassette sub-family D member 3.
Parent gene
- The parent gene g14245 is located on chr_1: 35827653..35831261 (+ 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 | g14245 | g14245.t1 | TSS | g14245.t1 | 35827429 | 35827429 |
| chr_1 | g14245 | g14245.t1 | isoform | g14245.t1 | 35827653 | 35831261 |
| chr_1 | g14245 | g14245.t1 | exon | g14245.t1.exon1 | 35827653 | 35827759 |
| chr_1 | g14245 | g14245.t1 | cds | g14245.t1.CDS1 | 35827653 | 35827759 |
| chr_1 | g14245 | g14245.t1 | exon | g14245.t1.exon2 | 35828584 | 35828702 |
| chr_1 | g14245 | g14245.t1 | cds | g14245.t1.CDS2 | 35828584 | 35828702 |
| chr_1 | g14245 | g14245.t1 | exon | g14245.t1.exon3 | 35829724 | 35829914 |
| chr_1 | g14245 | g14245.t1 | cds | g14245.t1.CDS3 | 35829724 | 35829914 |
| chr_1 | g14245 | g14245.t1 | exon | g14245.t1.exon4 | 35829974 | 35830273 |
| chr_1 | g14245 | g14245.t1 | cds | g14245.t1.CDS4 | 35829974 | 35830273 |
| chr_1 | g14245 | g14245.t1 | exon | g14245.t1.exon5 | 35830340 | 35831126 |
| chr_1 | g14245 | g14245.t1 | cds | g14245.t1.CDS5 | 35830340 | 35831126 |
| chr_1 | g14245 | g14245.t1 | exon | g14245.t1.exon6 | 35831203 | 35831261 |
| chr_1 | g14245 | g14245.t1 | cds | g14245.t1.CDS6 | 35831203 | 35831261 |
| chr_1 | g14245 | g14245.t1 | TTS | g14245.t1 | 35832003 | 35832003 |
Sequences
>g14245.t1 Gene=g14245 Length=1563
ATGGCAAATTTAAGTAAATTAACACAACGCAATGAATTTATCTGTGCAGCTGGTGTTGCA
GCCGCTGGTTTATTGTTGGCAATTTCCAAATATTCAAGAGAGCAAAGGCGTAAAAATTTA
AGGCCAGAAGATAAGATTGAATATTTTATCAGTGAGAAAAAGGATACGAAACGAGTAAAA
GCACATGTGAACGCAAAATTCTTCAAACAGCTGCGATTTTTACTTGGAATATTGGTTCCG
AGAAAATTAAGTGCAGAAACATTATTGTTAGTTGGTATTGCTGCTTCCCTTATTCTTCGC
TCAGTTAGTGACATTTGGATGATCCAAAATGCGACAATTATTGAAAGTTCAATCATTACG
ATGAATCATCAAAAGTTTAGAACTTCATTATGGAAATTTTTAGCTGCTATGCCAGCTATT
GCTGTCGTTAACAATGTGCTGAAATGGAGCATTGGCGAGTTGAAAATTAGATTTCGAACA
AATTTATCAAAGTATCTTTTTGATCAATACTTGAAAAATTATACATATTACAAGATGAGT
AATTTAGATAATCGAATTGCAAATGCCGATCAACTATTAACAACTGACATTGATAAATTC
TGTGAATCAACTGTTGACTTGTATTCAAACACATGCAAGCCTCTTCTCGATGTTTTTATC
TACATTTATCGCACAACATCCACCATCGGCCCTAAAACTCCTTTAATAATTATGATGTAC
CTGCTATTTTCTGGAGTTGCTTTGACTCATTTACGTCGACCGACTGGTAATTTAACCATA
CAAGAACAAAAACTCGAAGGAGAATATCGATTTGTCAATAGCCGTTTAATCACAAATTCA
GAAGAAGTTGCTTTTTATCAAGGAAATTCTAGAGAAAAGCTTACGATTTTGGCTAGTTTC
AACAAACTTACTGCTCATTTGAGAAAATTTTTAGAATTCCGAGTTGGTATGGGTGTTGTT
GATAATTTGGTTGCTAAATACATCGCAACTGGTGTAGGTTTTTATGCGGTTTCACTTCCA
TTCTTTGATAAGAGCAACAAACTCTTACAAGATAACAATGATGGAGAGCGTTTGAGACAT
TATTATACATTTGGTAGAATGCTTGTAAAATTGGCAGAAGCTATTGGCAGACTCGTTCTC
GCAGGACGAGAGATGAGCAGACTTGCTGGCTTCACAACAAGAATGGATGAGCTTATCAAA
GTACTTAATGAGTTAAATGATGGAAAATATGAACGTACAATGGTCAATAACTCTTCAAGT
GCTGATATGGAAATTGCTGTTGGCAAAGGAATAATTTCATTTCAAGACAACATTATTCGA
TTTGATAAAGTTCCTCTTGTCACACCAAATGGTGACATTTTAGTAAAAGAATTGACATTC
GAAGTGCAATCAGGGACGAATGTACTTGTGTGCGGCCCTAATGGTTGTGGAAAATCAAGT
TTATTCAGAATTCTTGGAGAATTATGGCCTACATGGGGTGGTAAAATTGTAAAACCGCCA
AGAGGAAAACTTTTCTATATACCACAGAGACCATACATGACGCTGGGAACATTGAGAGAT
TAA
>g14245.t1 Gene=g14245 Length=520
MANLSKLTQRNEFICAAGVAAAGLLLAISKYSREQRRKNLRPEDKIEYFISEKKDTKRVK
AHVNAKFFKQLRFLLGILVPRKLSAETLLLVGIAASLILRSVSDIWMIQNATIIESSIIT
MNHQKFRTSLWKFLAAMPAIAVVNNVLKWSIGELKIRFRTNLSKYLFDQYLKNYTYYKMS
NLDNRIANADQLLTTDIDKFCESTVDLYSNTCKPLLDVFIYIYRTTSTIGPKTPLIIMMY
LLFSGVALTHLRRPTGNLTIQEQKLEGEYRFVNSRLITNSEEVAFYQGNSREKLTILASF
NKLTAHLRKFLEFRVGMGVVDNLVAKYIATGVGFYAVSLPFFDKSNKLLQDNNDGERLRH
YYTFGRMLVKLAEAIGRLVLAGREMSRLAGFTTRMDELIKVLNELNDGKYERTMVNNSSS
ADMEIAVGKGIISFQDNIIRFDKVPLVTPNGDILVKELTFEVQSGTNVLVCGPNGCGKSS
LFRILGELWPTWGGKIVKPPRGKLFYIPQRPYMTLGTLRD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14245.t1 | Gene3D | G3DSA:3.40.50.300 | - | 435 | 520 | 6.0E-14 |
| 3 | g14245.t1 | PANTHER | PTHR11384 | ATP-BINDING CASSETTE, SUB-FAMILY D MEMBER | 1 | 520 | 2.4E-143 |
| 4 | g14245.t1 | PANTHER | PTHR11384:SF58 | ABC TRANSPORTER, CONSERVED SITE | 1 | 520 | 2.4E-143 |
| 1 | g14245.t1 | Pfam | PF06472 | ABC transporter transmembrane region 2 | 74 | 342 | 4.1E-92 |
| 2 | g14245.t1 | Pfam | PF00005 | ABC transporter | 456 | 496 | 2.5E-6 |
| 14 | g14245.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 12 | - |
| 18 | g14245.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 31 | - |
| 10 | g14245.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 32 | 87 | - |
| 16 | g14245.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 88 | 109 | - |
| 12 | g14245.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 110 | 128 | - |
| 15 | g14245.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 129 | 147 | - |
| 11 | g14245.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 148 | 232 | - |
| 17 | g14245.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 233 | 251 | - |
| 13 | g14245.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 252 | 520 | - |
| 9 | g14245.t1 | ProSiteProfiles | PS50929 | ABC transporter integral membrane type-1 fused domain profile. | 113 | 339 | 10.526 |
| 6 | g14245.t1 | SUPERFAMILY | SSF90123 | ABC transporter transmembrane region | 88 | 339 | 3.79E-9 |
| 7 | g14245.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 434 | 519 | 6.1E-13 |
| 5 | g14245.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 32 | - |
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:0055085 | transmembrane transport | BP |
| GO:0005524 | ATP binding | MF |
| GO:0042626 | ATPase-coupled transmembrane transporter activity | MF |
| GO:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K05677 (ATP-binding cassette, subfamily D (ALD), member 3)
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.
