General information for g16901.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ABC transporter G family member 20.
Parent gene
- The parent gene g16901 is located on chr_4: 11649867..11653221 (+ 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_4 | g16901 | g16901.t1 | isoform | g16901.t1 | 11649867 | 11653221 |
| chr_4 | g16901 | g16901.t1 | exon | g16901.t1.exon1 | 11649867 | 11649970 |
| chr_4 | g16901 | g16901.t1 | cds | g16901.t1.CDS1 | 11649867 | 11649970 |
| chr_4 | g16901 | g16901.t1 | exon | g16901.t1.exon2 | 11650027 | 11650794 |
| chr_4 | g16901 | g16901.t1 | cds | g16901.t1.CDS2 | 11650027 | 11650794 |
| chr_4 | g16901 | g16901.t1 | exon | g16901.t1.exon3 | 11651971 | 11652528 |
| chr_4 | g16901 | g16901.t1 | cds | g16901.t1.CDS3 | 11651971 | 11652528 |
| chr_4 | g16901 | g16901.t1 | exon | g16901.t1.exon4 | 11652587 | 11652946 |
| chr_4 | g16901 | g16901.t1 | cds | g16901.t1.CDS4 | 11652587 | 11652946 |
| chr_4 | g16901 | g16901.t1 | exon | g16901.t1.exon5 | 11653008 | 11653221 |
| chr_4 | g16901 | g16901.t1 | cds | g16901.t1.CDS5 | 11653008 | 11653221 |
| chr_4 | g16901 | g16901.t1 | TSS | g16901.t1 | NA | NA |
| chr_4 | g16901 | g16901.t1 | TTS | g16901.t1 | NA | NA |
Sequences
>g16901.t1 Gene=g16901 Length=2004
ATGAGTTGTGTTGAAGTGAAGAACGTTTTTAAAAGCTACTGGAATGGTGGCAAAGAAGAG
AAAATTCTCAATGGAATTAACATGAATGTTGATGAAGGAACAATTTATGCATTGATTGGT
GCTTCTGGCTGTGGAAAGACAACACTTTTATCATGTCTTATGGGAGTTCAAAAACCACAA
AGTGGTGAATTAAAAGTTTTCAATAGAAAATCTACAGAAGTTTCAAAATTAATTGGTTTC
ATGCCACAACACAATTCATTGGTTGCAGAACTGACAATCATTGAAACACTTCAATATTTC
TCAAGACTTTATGAAATGGACAATGATACTTTTTATGAAAGATTTAATATGATAAGAAGA
CTTTTGGAATTGCCACAGTCAAATTTAAAAATTCAAAATCTTTCTGGTGGACAACAAAGA
AGAGTTTCACTTGCAGCAACAATTATTCATAATCCAAAATTGTTAATTTTAGACGAACCA
ACTGTTGGATTAGATTTTTTATTACGTGAGAAAATTTGGAATTTTTTAATTGAAAAAACT
GAAAATGAAGGACTTACGACAATCATAACAACTCATTATATAAGCGAAGCAGCAAATGCA
CATCGTTGTGGTTTCATGCGAAAAGGAATTTTGATTAGTGAAGATGAACCAAGAAAAATT
TTGAGAAATTTAAATGTTGGAAGTTTAGATGAAGCTTTTTATGAGTTGTGTACTAAAGAA
TATTTTGGAAATCAAAACATTATAGAAAATAGACAAGAAAGGAAAAATGTTGGAGCTGAC
GATGAATTAGAAAATGATAAAAGAATTTTTCGATATAAAATTTTAAAAGGATTGTTGGTC
AAAGAATTTCATAGAATGAAGAGAAATTATTTAGAAATTTTCTTAGTTTTGATTCTTCCG
ATATTTCAAATAATAATTTTCAACAATTGCATTGGACTTATGCCAACAGATTTAAAATTT
GGAGTGATCAATTATGAAAATCAACATTGCAAAAATCAAACCATCAACAATAATTCAATT
TTATCTGAAGAGTGTCCAAATAGCACATTTTCTTGCGAACTCATCAATCAAATTAACAAC
AAAAATATTGAAACAATTTTTTATGACTCAAATCTGCAAGCAATTGAAGATTTTAAAATT
AGAAATATTTTTACACTCATTGAAATTCCAGAGAATTTTACAAAAATTATTTTTGATGAA
TCAAATGAAAAATTTGGTGAAATTTCTGTATCAATTGATAATTTAAAACATCCAGTGATT
TTTTTTGCCAAAGCAAAAATTATTGAATCATTTTTTGACTTTATGGGAAAATTGGCAGAA
AAATGTGATGTAAATGAATTCATAAGAACAAAACCAATGAGATTTTTTGAGCTTTTTGGA
AAATTGGATTATGATTCGAGAACTACAATGATGACTGCTATTGTTATATCAACTCCTTTC
ACAATGACAAATATTTTTGCTCTTTTGATAATTTCTGATACTCGAATTGCTGGTGTTTGG
AACAGAACACTTTTATGTGGTGTCAATGTGGCTGAAATAATTTTGGCAAGAATAATTGAA
TGTCTTTTAATAGCTTTTATTCTTGCAATTTCAATGATGACCTGTTTAAATATTTATGGA
ATTGAAATTGTTGGCAGCAGTTTATTAATTTTTATTATTATGATTGAAATTGCTGTTGTT
GGTTTCATGCTTGGATTTCTCATTTCAATAATATTTGATAAATTTCAAGCTTCATCTGGA
GTTGGTCAAATTATTTTAGTACTTGGTATTTTTACTGGTGGAATTTTTTGGCCAATTGAA
TCACTTTCAACATGGATTAAGCCAATTTCTTATGTTCATCCATTAACTTTTGTAATTCTT
GCTGTGAGAAATGTGATCATAAAAGGATTTAGTTTTTATCAACCAAGTGTTCTTTTGGGT
TTAGCTGTTGTTAATTCATGGATTATTTTTCTTGCAATTTTATCATATTTTGTATTAGAA
AAAAGAAAATTTTCTAAAATATAA
>g16901.t1 Gene=g16901 Length=667
MSCVEVKNVFKSYWNGGKEEKILNGINMNVDEGTIYALIGASGCGKTTLLSCLMGVQKPQ
SGELKVFNRKSTEVSKLIGFMPQHNSLVAELTIIETLQYFSRLYEMDNDTFYERFNMIRR
LLELPQSNLKIQNLSGGQQRRVSLAATIIHNPKLLILDEPTVGLDFLLREKIWNFLIEKT
ENEGLTTIITTHYISEAANAHRCGFMRKGILISEDEPRKILRNLNVGSLDEAFYELCTKE
YFGNQNIIENRQERKNVGADDELENDKRIFRYKILKGLLVKEFHRMKRNYLEIFLVLILP
IFQIIIFNNCIGLMPTDLKFGVINYENQHCKNQTINNNSILSEECPNSTFSCELINQINN
KNIETIFYDSNLQAIEDFKIRNIFTLIEIPENFTKIIFDESNEKFGEISVSIDNLKHPVI
FFAKAKIIESFFDFMGKLAEKCDVNEFIRTKPMRFFELFGKLDYDSRTTMMTAIVISTPF
TMTNIFALLIISDTRIAGVWNRTLLCGVNVAEIILARIIECLLIAFILAISMMTCLNIYG
IEIVGSSLLIFIIMIEIAVVGFMLGFLISIIFDKFQASSGVGQIILVLGIFTGGIFWPIE
SLSTWIKPISYVHPLTFVILAVRNVIIKGFSFYQPSVLLGLAVVNSWIIFLAILSYFVLE
KRKFSKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g16901.t1 | CDD | cd03230 | ABC_DR_subfamily_A | 4 | 211 | 9.66587E-52 |
| 8 | g16901.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 241 | 8.8E-56 |
| 4 | g16901.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 1 | 243 | 1.2E-135 |
| 6 | g16901.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 1 | 243 | 1.2E-135 |
| 3 | g16901.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 271 | 662 | 1.2E-135 |
| 5 | g16901.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 271 | 662 | 1.2E-135 |
| 2 | g16901.t1 | Pfam | PF00005 | ABC transporter | 23 | 161 | 1.7E-28 |
| 1 | g16901.t1 | Pfam | PF12698 | ABC-2 family transporter protein | 293 | 657 | 1.6E-13 |
| 15 | g16901.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 289 | - |
| 17 | g16901.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 290 | 311 | - |
| 9 | g16901.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 312 | 470 | - |
| 19 | g16901.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 471 | 491 | - |
| 16 | g16901.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 492 | 510 | - |
| 21 | g16901.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 511 | 536 | - |
| 12 | g16901.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 537 | 547 | - |
| 20 | g16901.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 548 | 572 | - |
| 14 | g16901.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 573 | 577 | - |
| 23 | g16901.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 578 | 599 | - |
| 11 | g16901.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 600 | 610 | - |
| 22 | g16901.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 611 | 631 | - |
| 13 | g16901.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 632 | 636 | - |
| 18 | g16901.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 637 | 659 | - |
| 10 | g16901.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 660 | 667 | - |
| 31 | g16901.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 134 | 148 | - |
| 34 | g16901.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 4 | 233 | 21.122 |
| 33 | g16901.t1 | ProSiteProfiles | PS51012 | ABC transporter integral membrane type-2 domain profile. | 435 | 662 | 9.335 |
| 32 | g16901.t1 | SMART | SM00382 | AAA_5 | 32 | 214 | 1.1E-8 |
| 7 | g16901.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 225 | 3.66E-52 |
| 30 | g16901.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 293 | 315 | - |
| 28 | g16901.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 470 | 492 | - |
| 26 | g16901.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 513 | 535 | - |
| 29 | g16901.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 550 | 572 | - |
| 27 | g16901.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 584 | 606 | - |
| 25 | g16901.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 637 | 659 | - |
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:0016021 | integral component of membrane | CC |
| GO:0043190 | ATP-binding cassette (ABC) transporter complex | CC |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01990 (ABC-2 type transport system ATP-binding protein)
Pathway
This gene does not belong to any 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.
