General information for g536.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ATP-binding cassette sub-family A member 3.
Parent gene
- The parent gene g536 is located on chr_3: 3980576..3982701 (+ 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_3 | g536 | g536.t1 | isoform | g536.t1 | 3975783 | 3982701 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon1 | 3975783 | 3975871 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS1 | 3975783 | 3975871 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon2 | 3975927 | 3976030 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS2 | 3975927 | 3976030 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon3 | 3976091 | 3976170 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS3 | 3976091 | 3976170 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon4 | 3979192 | 3980582 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS4 | 3979192 | 3980582 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon5 | 3980638 | 3980741 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS5 | 3980638 | 3980741 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon6 | 3980798 | 3981255 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS6 | 3980798 | 3981255 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon7 | 3981311 | 3981451 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS7 | 3981311 | 3981451 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon8 | 3981507 | 3981626 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS8 | 3981507 | 3981626 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon9 | 3981694 | 3982207 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS9 | 3981694 | 3982207 |
| chr_3 | g536 | g536.t1 | exon | g536.t1.exon10 | 3982268 | 3982701 |
| chr_3 | g536 | g536.t1 | cds | g536.t1.CDS10 | 3982268 | 3982701 |
| chr_3 | g536 | g536.t1 | TSS | g536.t1 | NA | NA |
| chr_3 | g536 | g536.t1 | TTS | g536.t1 | NA | NA |
Sequences
>g536.t1 Gene=g536 Length=3435
ATGTTGAAAGAACTTGAAGAAAATTCAAAAGAATTGAATATCGAAAGTTATGGAATTTCA
TTGACAACACTTGAAGAAGTTTTCTTAAAAATCGGGACAGATAATCCAGAAGATGAATCA
AAATCGCCAGTAAAATTAAACGGAACTACAATGAATGGTCACGCAAACAAAATAGAGGAA
GGCGGAAACTTTTATAATTACTCGGACACTCTTACACTTCTCAAGGGAATTCAGTTATAC
TTAAATCAATTTGTTGCTCTCATGCAAAAAAAGGCTTCAACAGCTGCTGCTGTAGCTGGA
TTAGTTTGGTTTCTGATTTACTCACCCTATTCTTTCATACAACAACGTTATGACTCAATT
TCATTAACGACAAAAATCCTACTGAGTTTTATGTCCAACACAGGCATGGCGTTGGGTTTT
AATGTGATTATGCGATATGAAGGAACACAGGAAGGCATGCAATGGCATAACATATTCAAA
CCAGTCTCAATCGATGATACTTTTCATCTTGGGCATGTGATTATAATGCTGATTGTTGAT
GCCATCATTTATCTGCTGATTGCACTTTATGTCGAGAAAATTTTTCCTGGTGATTATGGA
GTAGCAGAAAAATGGAATTTTCCATTTTCATCAAAATTTTGGTTTAAAGTTCCTGAATAT
GTTGGAGTTCGTGATGTTAATTCGAATGATGTAAATCATTTAAATCCTAATTATGAACAT
GAACCAAAAAATAAAGCTGCTGGCATTCAAATTTACAATTTAAGGAAAACTTTTGACAAT
AATCGTGTGGCAGTTGAAGGTTTAAATTTAAACATGTATGAAGATCAAATCACTGTTCTA
CTTGGGCATAATGGAGCAGGCAAAACAACAACAATGTCGATGGTAACTGGAATGATTCAA
CCAACTTCAGGGACAGCAATTATCAATGGAAAAGATATCAGAAGAGATATGAATGCAATT
CGATCTTCAATTGGGTTTTGTCCTCAACATAACATTCTATTTGAAGATTTAACAGTTCGT
GAACACATCACATTTTATAGCTTGCTCAAAGGATTGCACAAGGATGATGTTGAAAGAGAA
GTCGAGAAATATGTAAAATTATTGAAACTCGAAAACAAAATTGATGTGCAAGCTAGTGGA
CTATCTGGTGGAATGAAACGAAAATTGTCAGTTGGTATTGCTCTTTGTGCAAATTCAAAA
ATTGTTTTATTTGATGAACCAAGCTCAGGTGTTGATCCTGGTGCAAGAAGAGACTTGTGG
GATTTGTTACAAACTGAAAAAGGTGGTCGAACTATTTTATTATCAACTCATTTCATGCTC
GAAGCAGATGTGCTTGGTGATCGCATTGCAATCATGTCTAATGGAGTTCTTAAAGCTGTT
GGTTCACCATATTTTCTCAAGAAACAATTTGGTGTTGGCTATCATTTAGTTTGTGTCAAA
AAAGATGCTTCATGTGATTCAATGGCAGTTACTGAATTATTGAGAAAGTACATTCCAGAT
GTGAAGAAAGAAAGTGAAATTGGGACTGAATTGTCTTATTTACTTGATGATAAAAATTTA
CTGGTGTTTCAAAAGATGTTGAAAGAACTTGAAGAAAATTCAGAAGAATTAAACATCGAA
AGTTATGGAATTTCATTGACAACACTTGAAGAAGTTTTCTTAAAAATCGGGACAGATAAT
CCGGAAGATGAATCAAAATCGCCAGTAAAATTAAACGGGACTACAATGAATGGTCACGCA
AACAAAATAGAGGAAAGCGGAAACTTTTATAATTACTCGGACACTCTTACACTTCTCAAG
GGAATTCAGTTATATTTAAATCAGTTTGTTGCTCTCATGCAAAAAAAGGTTCTTAATTCA
TGGCGGAACTTAGTACTTTTAATCATTCAAATTATCATCCCGATTTCGTTTGTTTCAATC
ACAATCATAATTGTGAGATCTTGGGGCGGAAATAAAGATTTACCAAAACTTCAGTTGACA
TTGGACACTTACAAGCCAACTCGTACATCAGTGCAATTCGACCCAAGTGCATGGGTTGAT
TCTATAGAAAACAAAATCTTTGAAAATTATCGCGAACAATTCAAAAGTTATTCAAAAGAT
TTACAATCTCTAGAAGTCATTCATGGTGACATGATTGAACATTATCTCAATAAATCTAAA
GAATTTTTAGCTCGTGTCAATAATCGATATCTTTTTGGTGCAACAATTGAAAATTCAAGC
ATAACTGTGTGGTTCAATAATCAACCTTATCATACAAGTCCCATCAGCTTATCACTCGTG
CATAATGCAATGTTACGAACAATTTGTGGTGAAAATTGTAGCATAAAAGTGTCAAACAAA
CCATTGCCTTATCGTGCTGAATCGAGAATGATGATGCTTCAAGCTGGTAATAATCTTGGC
TTTCAATTAGCTTTTAACATTGGATTTGCGATGGCATTTGTTGCTTCATTCTTTGTAATT
TCTTACATCAAAGAGCGAGTCACGAAAGCTAAACATTTACAATTTGTAAGCGGAGTGAGT
TCAGTGACATATTGGAGTAGTGCATTTATTTGGGATTACTTCTTATTCTTGATCATTTCA
CTTCTTATTACGATCACAATTGGAGCATTTCAAGAAAAAGGATTTAGCACTTTTGAGCAA
CTTATTCGAGTTTATTTCTTGCTCATCATGTTTGGTTTTGCTGTTCTACCATTTCTTTAT
ATCGCTGCCTTTATTTTTAAATCACCAGCATCAGGGTTTACAAAGATGTCAATCATATTT
ATATTCTTGGGTGTTGCGATGTACACGGTTGTGTTTTCAATGCGCTTCGAAGGATTTAAT
TTAAGAGATGTTGCTGATACACTCACATGGATATTTCTGACTGTTCCTCATTTTTCTTTA
AGTAATGCATTCAGCAATATCAACTTAATTAATGTATTTAAAGAAGTTTGTGATCAACAA
TGCAATTTATTGGGAATTTGTGACAAGGAAAAACAATGTGCCTTTAATGCTCGATGTTGC
AATCTCAATTATTTTGCATGGGAAGAACCAGGAATTTTAAGGAACCTCATTTACTTCTTA
ATTGTCGGCATTTGTGCCTTTTGTGTGCTGTTCTTGATTGAATTTAGAGTGTTTGAGGTT
TTATATTATTACATACGAATGATTTATCGAGCAATTTTTGGAATAATTTGTCCAAAACTT
ATTAAACGACCGCCAAATTTTGGTGAAACTCAAGATGATGACGACGATGTAAAAGCAGAG
AAAGAAAAAATCAACAATATGATGTCAAGTGACTATCAAAATTACAATTTAGTAATGAAA
AATGTATCAAAATATTATGGAGACTTTCTAGCTGTTAATCAGCTTTGTATTGGAATCGGT
TCTGGTGAATGTTTCGGCTTGCTAGGAATGAATGGAGCAAGGCAAAACTTCGTCATTCAA
AATGTTGACTGGTGA
>g536.t1 Gene=g536 Length=1144
MLKELEENSKELNIESYGISLTTLEEVFLKIGTDNPEDESKSPVKLNGTTMNGHANKIEE
GGNFYNYSDTLTLLKGIQLYLNQFVALMQKKASTAAAVAGLVWFLIYSPYSFIQQRYDSI
SLTTKILLSFMSNTGMALGFNVIMRYEGTQEGMQWHNIFKPVSIDDTFHLGHVIIMLIVD
AIIYLLIALYVEKIFPGDYGVAEKWNFPFSSKFWFKVPEYVGVRDVNSNDVNHLNPNYEH
EPKNKAAGIQIYNLRKTFDNNRVAVEGLNLNMYEDQITVLLGHNGAGKTTTMSMVTGMIQ
PTSGTAIINGKDIRRDMNAIRSSIGFCPQHNILFEDLTVREHITFYSLLKGLHKDDVERE
VEKYVKLLKLENKIDVQASGLSGGMKRKLSVGIALCANSKIVLFDEPSSGVDPGARRDLW
DLLQTEKGGRTILLSTHFMLEADVLGDRIAIMSNGVLKAVGSPYFLKKQFGVGYHLVCVK
KDASCDSMAVTELLRKYIPDVKKESEIGTELSYLLDDKNLLVFQKMLKELEENSEELNIE
SYGISLTTLEEVFLKIGTDNPEDESKSPVKLNGTTMNGHANKIEESGNFYNYSDTLTLLK
GIQLYLNQFVALMQKKVLNSWRNLVLLIIQIIIPISFVSITIIIVRSWGGNKDLPKLQLT
LDTYKPTRTSVQFDPSAWVDSIENKIFENYREQFKSYSKDLQSLEVIHGDMIEHYLNKSK
EFLARVNNRYLFGATIENSSITVWFNNQPYHTSPISLSLVHNAMLRTICGENCSIKVSNK
PLPYRAESRMMMLQAGNNLGFQLAFNIGFAMAFVASFFVISYIKERVTKAKHLQFVSGVS
SVTYWSSAFIWDYFLFLIISLLITITIGAFQEKGFSTFEQLIRVYFLLIMFGFAVLPFLY
IAAFIFKSPASGFTKMSIIFIFLGVAMYTVVFSMRFEGFNLRDVADTLTWIFLTVPHFSL
SNAFSNINLINVFKEVCDQQCNLLGICDKEKQCAFNARCCNLNYFAWEEPGILRNLIYFL
IVGICAFCVLFLIEFRVFEVLYYYIRMIYRAIFGIICPKLIKRPPNFGETQDDDDDVKAE
KEKINNMMSSDYQNYNLVMKNVSKYYGDFLAVNQLCIGIGSGECFGLLGMNGARQNFVIQ
NVDW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 32 | g536.t1 | CDD | cd03263 | ABC_subfamily_A | 249 | 467 | 2.07903E-110 |
| 10 | g536.t1 | Coils | Coil | Coil | 520 | 540 | - |
| 9 | g536.t1 | Gene3D | G3DSA:3.40.50.300 | - | 237 | 480 | 1.6E-63 |
| 3 | g536.t1 | PANTHER | PTHR19229:SF139 | ATP-BINDING CASSETTE, SUB-FAMILY A (ABC1), MEMBER 14 | 2 | 92 | 5.7E-248 |
| 5 | g536.t1 | PANTHER | PTHR19229 | ATP-BINDING CASSETTE TRANSPORTER SUBFAMILY A ABCA | 2 | 92 | 5.7E-248 |
| 4 | g536.t1 | PANTHER | PTHR19229:SF139 | ATP-BINDING CASSETTE, SUB-FAMILY A (ABC1), MEMBER 14 | 84 | 1135 | 5.7E-248 |
| 6 | g536.t1 | PANTHER | PTHR19229 | ATP-BINDING CASSETTE TRANSPORTER SUBFAMILY A ABCA | 84 | 1135 | 5.7E-248 |
| 2 | g536.t1 | Pfam | PF00005 | ABC transporter | 266 | 408 | 5.4E-28 |
| 1 | g536.t1 | Pfam | PF12698 | ABC-2 family transporter protein | 626 | 1031 | 1.6E-46 |
| 15 | g536.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 91 | - |
| 24 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 92 | 113 | - |
| 18 | g536.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 114 | 124 | - |
| 31 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 125 | 146 | - |
| 14 | g536.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 147 | 166 | - |
| 25 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 167 | 191 | - |
| 19 | g536.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 192 | 623 | - |
| 26 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 624 | 645 | - |
| 11 | g536.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 646 | 798 | - |
| 27 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 799 | 823 | - |
| 20 | g536.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 824 | 842 | - |
| 30 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 843 | 870 | - |
| 13 | g536.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 871 | 881 | - |
| 23 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 882 | 906 | - |
| 17 | g536.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 907 | 911 | - |
| 22 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 912 | 932 | - |
| 12 | g536.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 933 | 1015 | - |
| 29 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1016 | 1035 | - |
| 21 | g536.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1036 | 1040 | - |
| 28 | g536.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1041 | 1061 | - |
| 16 | g536.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1062 | 1144 | - |
| 44 | g536.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 381 | 395 | - |
| 45 | g536.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 249 | 479 | 21.562 |
| 43 | g536.t1 | SMART | SM00382 | AAA_5 | 274 | 456 | 2.2E-8 |
| 8 | g536.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 242 | 475 | 2.06E-54 |
| 7 | g536.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1087 | 1133 | 2.41E-5 |
| 36 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 94 | 113 | - |
| 37 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 126 | 148 | - |
| 39 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 190 | - |
| 35 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 623 | 645 | - |
| 41 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 799 | 821 | - |
| 33 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 847 | 869 | - |
| 40 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 884 | 906 | - |
| 38 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 911 | 933 | - |
| 42 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 948 | 970 | - |
| 34 | g536.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1016 | 1038 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g536/g536.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g536.t1.fa.iupred3.txt does not exist
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 |
| 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.
