Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ABC transporter G family member 23.

Parent gene

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 g10140 g10140.t7 isoform g10140.t7 7730967 7732048
chr_1 g10140 g10140.t7 exon g10140.t7.exon1 7730967 7730968
chr_1 g10140 g10140.t7 cds g10140.t7.CDS1 7730968 7730968
chr_1 g10140 g10140.t7 exon g10140.t7.exon2 7731026 7731844
chr_1 g10140 g10140.t7 cds g10140.t7.CDS2 7731026 7731844
chr_1 g10140 g10140.t7 exon g10140.t7.exon3 7731912 7732048
chr_1 g10140 g10140.t7 cds g10140.t7.CDS3 7731912 7732018
chr_1 g10140 g10140.t7 TSS g10140.t7 7732067 7732067
chr_1 g10140 g10140.t7 TTS g10140.t7 NA NA

Sequences

>g10140.t7 Gene=g10140 Length=958
TTCTTGTTTGTCAGCACACTTGATCACATCATGAATAGTGTTGAAGTCAGAGATGCTTTC
ATTAGTTATCACAATGAAAGTACAAAACAAAAGTTTATTTTAAATGGATTAAATATGACA
GTTGCACCAAGTTCAATATATGCTTTAATTGGTGCTTCGGGATGTGGTAAAACAACTTTA
CTTTCTTGTATTTTGGGAATGAAAGAACTTGATTCTGGGACAATAAAAGTTTTGGGACAT
AAAGTTACATCAAAAAAACAAAATAAAGTTGCACGGTCAATTGGTTTTATGCCACAGGAT
ATTGCACTTTCACCACAATTAACAATCGGTGAAACATTAAAATATTTCGGAAATATTTTC
CTTATGAGTGAACAAAAATTAGAAGAAAGATCACATATGATCAAAGAATTGCTTGAACTA
CCGCCTGATGATAGATTAATTGAAAATTTATCAGGTGGTCAAAGAAGAAGAGTGTCATTA
GCAGCAGCAATCATTCATAATCCTCAAATTTTAATTCTTGATGAACCTACAGTCGGTGTT
GATTCAATACTTCGCGACAAAATTTGGAAATTTTTAATTAAATCAACACGCGAAAGCAAT
TTATCAATTATCATCACAACTCACTATATTTCTGAAGCACAACAGTCAGATAGATGTGGA
ATGATGAGAGATGGTGTTCTACTGGCTGAGGATTCACCAAGAAACATTTTGCTAAAATAT
GAAGCAGATAGCTTAGATGAAGCATTTTTAAATTTATGCAAATTGAATAAACAAGTTTTG
CCAAATTCGCAAAATCCAATAGAAGTTGTATGTGATGGATACGTAAAGAATGACATTGGT
GCAGGTCAAGAGAAAATTGATGAATTGTCTCATTTCAAAGGAAAGCTTTTATATTACATT
CAAATTATTTCTGCTTTATTTTCTAAAGAATGGGCATGCTTTAAGCGTGGTAAAATGG

>g10140.t7 Gene=g10140 Length=309
MNSVEVRDAFISYHNESTKQKFILNGLNMTVAPSSIYALIGASGCGKTTLLSCILGMKEL
DSGTIKVLGHKVTSKKQNKVARSIGFMPQDIALSPQLTIGETLKYFGNIFLMSEQKLEER
SHMIKELLELPPDDRLIENLSGGQRRRVSLAAAIIHNPQILILDEPTVGVDSILRDKIWK
FLIKSTRESNLSIIITTHYISEAQQSDRCGMMRDGVLLAEDSPRNILLKYEADSLDEAFL
NLCKLNKQVLPNSQNPIEVVCDGYVKNDIGAGQEKIDELSHFKGKLLYYIQIISALFSKE
WACFKRGKM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g10140.t7 CDD cd03230 ABC_DR_subfamily_A 4 217 7.45866E-55
5 g10140.t7 Gene3D G3DSA:3.40.50.300 - 1 258 7.3E-60
2 g10140.t7 PANTHER PTHR43038 ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 1 245 4.2E-98
3 g10140.t7 PANTHER PTHR43038:SF2 RH61964P 1 245 4.2E-98
1 g10140.t7 Pfam PF00005 ABC transporter 24 167 1.1E-32
7 g10140.t7 ProSitePatterns PS00211 ABC transporters family signature. 140 154 -
9 g10140.t7 ProSiteProfiles PS50893 ATP-binding cassette, ABC transporter-type domain profile. 4 239 19.688
8 g10140.t7 SMART SM00382 AAA_5 33 223 9.8E-9
4 g10140.t7 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 4 227 4.12E-53

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

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. There were no conditions that were differentially expressed