General information for g10958.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-binding cassette sub-family G member 4.
Parent gene
- The parent gene g10958 is located on chr_1: 13023028..13025048 (- 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 | g10958 | g10958.t1 | isoform | g10958.t1 | 13021608 | 13024008 |
| chr_1 | g10958 | g10958.t1 | exon | g10958.t1.exon1 | 13021608 | 13021888 |
| chr_1 | g10958 | g10958.t1 | cds | g10958.t1.CDS1 | 13021608 | 13021888 |
| chr_1 | g10958 | g10958.t1 | exon | g10958.t1.exon2 | 13021943 | 13022966 |
| chr_1 | g10958 | g10958.t1 | cds | g10958.t1.CDS2 | 13021943 | 13022966 |
| chr_1 | g10958 | g10958.t1 | exon | g10958.t1.exon3 | 13023028 | 13023252 |
| chr_1 | g10958 | g10958.t1 | cds | g10958.t1.CDS3 | 13023028 | 13023252 |
| chr_1 | g10958 | g10958.t1 | exon | g10958.t1.exon4 | 13023322 | 13023566 |
| chr_1 | g10958 | g10958.t1 | cds | g10958.t1.CDS4 | 13023322 | 13023566 |
| chr_1 | g10958 | g10958.t1 | exon | g10958.t1.exon5 | 13023689 | 13023754 |
| chr_1 | g10958 | g10958.t1 | cds | g10958.t1.CDS5 | 13023689 | 13023754 |
| chr_1 | g10958 | g10958.t1 | exon | g10958.t1.exon6 | 13023861 | 13024008 |
| chr_1 | g10958 | g10958.t1 | cds | g10958.t1.CDS6 | 13023861 | 13024008 |
| chr_1 | g10958 | g10958.t1 | TSS | g10958.t1 | 13024758 | 13024758 |
| chr_1 | g10958 | g10958.t1 | TTS | g10958.t1 | NA | NA |
Sequences
>g10958.t1 Gene=g10958 Length=1989
ATGGAATTCTCTGCACCATTACCATTACCAAAACAATGCGAGACTTCCACTGCAGAAGCA
ACCACAAGCATTTTAAAATATCCAAAAGACATCAATATAAGCTTTGATAATATAAATTAT
ACAACAAAAATAGGATTTTTTAAGAGAAATGATAAGCATATATTAAAAAATTTAAGTGGA
GAATTTCGATCACGCCAACTAACTGCAATTGTAGGCCCATCCGGATCTGGCAAGAGTAGC
TTAATGGATATTTTATCAGGCTATAATGTAGGAAAAAATGTAACGGGTAGTGTCAAAGTG
AATGGAACAATTCGTGATCAAAAACAATTTCGACATATGAGCAGCTACATTATGCAAGAT
CATATTCAGCATCCATTACTCACTGTTAAAGAAGCTATGAAATTTTCTGCAAATTTAAAA
ATTGGCAAAGAATTGAGTTCTGAAGAAAAACAGTTTAAGATCAACGAAATTCTTGAAAAC
CTTGGATTAACTGATAAAATTAATACGATGACAGAAGACTTATCAGGTGGCCAACAAAAA
CGTTTAAGCATTGCTCTCGAAATGGTAGATTCTCCTCAAATTATGTTCTTCGATGAAGTT
ACGACTGGTCTTGATAGTTCATCGTCGACACAATGTATATATTTACTGAAGAAATTAGTC
ATGCTTGGACAAACAATAATTTGTACAATACATCAACCGTCAGCAGCAATATTTGAAACA
TTTGATCATGTCTATGCATTAGCTGATGGACATTGCATATATCAAGGATGCAGTAAAAAT
CTTGTGCCATATTTAAGAGAATTTGATTTAGTTTGTCCAAAATTTAACAATCCTGCCGAC
TTTTTAATTGAAGTAGCGCATGAATGTCCAGTACATGAATTGGTGATAAAAATGGAAAAT
GGAAGGAATAAAAATTATTTTAAGAAGCAACCTGAAGCATTTGAAAATGGCAAAAATCAT
ACACTTCCAAAGTTAAAGGCAACTGAAATCAATCCAATTAGTGCATGTGTCAAAAGAGCA
AAAATCAATGCACGTCAAATTTTAGATCCAAAGAATTATTGTAATGACTCTGATTTATAT
TCGACCTCCTTTCTACGCCAATTTTATTACCTCTATGTTAGACGCTTATTGTTGATTACA
AGAAATCCTTCGTTATCGATAATGCGACTCGTAATACACATTGTTGTCGCTATCTTCATT
GGGATTTTATATTATCAGATAGGTTTATCGGCCAAAAATATGATGAATAATTTTAACTAT
ATCTTTTACACTGTCATGTTTTTGATGTACACTGCATATTCAAGTCTACAAACAACATTT
CCATCAGAACTGCCAATTGTAAAAATGGAACATTTTAATCGTTGGTACTCGTTTACAGCA
TATTATTTAAGTCTTGTCTTTGCCGATATACCAATACAAGTGCTATGTACTGTGGCTTAT
ATTTTGATAACATACTTCCTTACTAGTCAACCATTCGAATGGTTTCGATTCATCGCCTTT
TTAATGATAAATCTCTTATGTACTTTTGTGGCGCAAGGATATGGAATTTTAGTATCTTCG
CTTTTTAATGTCAAATGGGGAACAATACTTGGAAACTTTTTCATAAGTCCTTTCCTTATT
TTTTCGGGATTTTTTATTCAATTCAACCATGTTCAATCCTGGCTTCATTGGTTCTTTCAT
TTTTCATTTTTGAAGTATGCACTTGAAGGTGGTGTATATGCAATTTTTGGATTTCAAAGA
AAAAAACTCGAATGTGATGAAAATGGCGATGACGATAAAATACAATTTTGCTTTTTTACT
GATCCCAATAAATTGATACGCGAGAAAGGTATACAAGATTGTGCCAATAACTCAACAAAA
AAATGTGCTGATGTCATGTATGAAGATCAGAAAACTAATTTTTACATAGTTATTGTTGCA
CTTATAATGTTCATTATACTTTTTCGTGTGATTGCTTATTGCATCATGCGATATCGATTG
AAGCATTAA
>g10958.t1 Gene=g10958 Length=662
MEFSAPLPLPKQCETSTAEATTSILKYPKDINISFDNINYTTKIGFFKRNDKHILKNLSG
EFRSRQLTAIVGPSGSGKSSLMDILSGYNVGKNVTGSVKVNGTIRDQKQFRHMSSYIMQD
HIQHPLLTVKEAMKFSANLKIGKELSSEEKQFKINEILENLGLTDKINTMTEDLSGGQQK
RLSIALEMVDSPQIMFFDEVTTGLDSSSSTQCIYLLKKLVMLGQTIICTIHQPSAAIFET
FDHVYALADGHCIYQGCSKNLVPYLREFDLVCPKFNNPADFLIEVAHECPVHELVIKMEN
GRNKNYFKKQPEAFENGKNHTLPKLKATEINPISACVKRAKINARQILDPKNYCNDSDLY
STSFLRQFYYLYVRRLLLITRNPSLSIMRLVIHIVVAIFIGILYYQIGLSAKNMMNNFNY
IFYTVMFLMYTAYSSLQTTFPSELPIVKMEHFNRWYSFTAYYLSLVFADIPIQVLCTVAY
ILITYFLTSQPFEWFRFIAFLMINLLCTFVAQGYGILVSSLFNVKWGTILGNFFISPFLI
FSGFFIQFNHVQSWLHWFFHFSFLKYALEGGVYAIFGFQRKKLECDENGDDDKIQFCFFT
DPNKLIREKGIQDCANNSTKKCADVMYEDQKTNFYIVIVALIMFIILFRVIAYCIMRYRL
KH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 22 | g10958.t1 | CDD | cd03213 | ABCG_EPDR | 31 | 256 | 1.84718E-75 |
| 6 | g10958.t1 | Gene3D | G3DSA:3.40.50.300 | - | 33 | 266 | 4.6E-52 |
| 3 | g10958.t1 | PANTHER | PTHR48041:SF78 | ABC TRANSPORTER EXPRESSED IN TRACHEA, ISOFORM A-RELATED | 23 | 657 | 3.9E-194 |
| 4 | g10958.t1 | PANTHER | PTHR48041 | ABC TRANSPORTER G FAMILY MEMBER 28 | 23 | 657 | 3.9E-194 |
| 2 | g10958.t1 | Pfam | PF00005 | ABC transporter | 55 | 201 | 4.0E-23 |
| 1 | g10958.t1 | Pfam | PF01061 | ABC-2 type transporter | 366 | 575 | 3.5E-37 |
| 12 | g10958.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 386 | - |
| 15 | g10958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 387 | 408 | - |
| 7 | g10958.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 409 | 419 | - |
| 16 | g10958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 420 | 440 | - |
| 11 | g10958.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 441 | 459 | - |
| 18 | g10958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 460 | 487 | - |
| 8 | g10958.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 488 | 493 | - |
| 20 | g10958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 494 | 517 | - |
| 14 | g10958.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 518 | 528 | - |
| 21 | g10958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 529 | 548 | - |
| 10 | g10958.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 549 | 554 | - |
| 19 | g10958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 555 | 576 | - |
| 13 | g10958.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 577 | 633 | - |
| 17 | g10958.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 634 | 656 | - |
| 9 | g10958.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 657 | 662 | - |
| 30 | g10958.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 174 | 188 | - |
| 32 | g10958.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 33 | 274 | 17.487 |
| 31 | g10958.t1 | SMART | SM00382 | AAA_5 | 64 | 251 | 7.3E-12 |
| 5 | g10958.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 23 | 272 | 5.45E-44 |
| 29 | g10958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 385 | 407 | - |
| 24 | g10958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 419 | 441 | - |
| 25 | g10958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 465 | 487 | - |
| 23 | g10958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 494 | 516 | - |
| 28 | g10958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 526 | 548 | - |
| 26 | g10958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 555 | 577 | - |
| 27 | g10958.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 634 | 656 | - |
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:0016020 | membrane | CC |
| GO:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K05679 (ATP-binding cassette, subfamily G (WHITE), member 1)
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.
