Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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.t5 TTS g10140.t5 7729074 7729074
chr_1 g10140 g10140.t5 isoform g10140.t5 7729337 7731325
chr_1 g10140 g10140.t5 exon g10140.t5.exon1 7729337 7729674
chr_1 g10140 g10140.t5 cds g10140.t5.CDS1 7729467 7729674
chr_1 g10140 g10140.t5 exon g10140.t5.exon2 7729742 7730104
chr_1 g10140 g10140.t5 cds g10140.t5.CDS2 7729742 7730104
chr_1 g10140 g10140.t5 exon g10140.t5.exon3 7730378 7730968
chr_1 g10140 g10140.t5 cds g10140.t5.CDS3 7730378 7730968
chr_1 g10140 g10140.t5 exon g10140.t5.exon4 7731026 7731325
chr_1 g10140 g10140.t5 cds g10140.t5.CDS4 7731026 7731321
chr_1 g10140 g10140.t5 TSS g10140.t5 7732067 7732067

Sequences

>g10140.t5 Gene=g10140 Length=1592
TGGAATGATGAGAGATGGTGTTCTACTGGCTGAGGATTCACCAAGAAACATTTTGCTAAA
ATATGAAGCAGATAGCTTAGATGAAGCATTTTTAAATTTATGCAAATTGAATAAACAAGT
TTTGCCAAATTCGCAAAATCCAATAGAAGTTGTATGTGATGGATACGTAAAGAATGACAT
TGGTGCAGGTCAAGAGAAAATTGATGAATTGTCTCATTTCAAAGGAAAGCTTTTATATTA
CATTCAAATTATTTCTGCTTTATTTTCTAAAGAATGGGCATGCTTTAAGCGTGGTAAAAT
GGATCTTTTATCAAATCTACTATATCTAACATTTTTAAGTATTATGCTTATGTTTGGTCC
AGGCTCTGATCCAAGAGGTTTAAAAATAGGAATTGTAAATAAGGAAGTGCTTGATCCATC
ATACTGTAAAGATTATTTAAGACAGAATATTTCATATCGTAATGAGTTCAATGACTGCAT
TTATGAACATTTGTCGTGTCATTTTCTAAATGAAATTCAAGATGAAGATTTTATCAAGGT
TCATTACAACAATTTCAATGATTCTTACAAAGATGCAAAACAAGGAAAATTAATTGCTGT
CCTTGAAATTCAAAGAAATTTCTCTGAAGCTCTTCAGTATTTGCACGAGAATTTCAATGC
AAATGGTATTGAATTTAGTCAAGTTGGAGTGCATTTGGATCAAACTGATATGCAAATTTC
AACATTCGTTCATAATCGACTTATGAAAGCTTATTTCAAATTTGCTGAGAAAGTCATGGT
TGGTTGTAAATATAACAAAGATTTTGTCAAGCCACCTTTGAATATATCACCAATGTTTGG
TTCACTTTACAAAAGTTTTAAGAAATCAATCCTACCTTTGTTTATTTTACAAGGAGCATA
TTTTCAATCATTTGGTTCATCATGCTACAGAATATCACAGAGTAAAGTAGATGGAATTTG
GAATCGAACACTTTTAGCTGGAGTCAATCCAATTGAAATCTTGATAGTTCAATTTATTTT
TTCAATCGTCATAATGTTTGTGTCATTTTTAAGTGGAATATTGGTGTTGTTTTTGTCAAT
CGGAATCACAGATTTCACAACAATTTTCGTTTCATTCATATTGGGAATCTCGTTTTGCAC
AGCTGGCATTTTTATGAGTGTGTTGTTGTCATCGGTAACAAAAAATGCAAGTTTTATAAC
AGCGTTTATATTTGGTGGATCAATTCTAGCGGTAACAACATCGGGTTTGTTTTGGCCTGT
TGACGGTCAACCAGAATGGCTTCAGCAAATTTCTTATTTTTTGCCATTTGCTTACACATC
AGATTCTTTACGTGATATTGTTATGAAAGGATCAACATTTCTTGATTTTAATGTCATTAA
AGGATTTGTAAATATTTTCTTTTGGATTATTGCGACATTTTTGTTATCATTTTTGGTGAT
GAAGAAGAAAAAATTTTCATAGTTTTAAAAGAATGAAAATTAAATTTAATTAAAAATTAA
AATATTTACATCACGTTAAGTTTAATGACCGAATTTTTTTCTCACATGAAATGACACAAT
TTTTTGACTTGCCTAGACTTATTGACCTTGAG

>g10140.t5 Gene=g10140 Length=485
MMRDGVLLAEDSPRNILLKYEADSLDEAFLNLCKLNKQVLPNSQNPIEVVCDGYVKNDIG
AGQEKIDELSHFKGKLLYYIQIISALFSKEWACFKRGKMDLLSNLLYLTFLSIMLMFGPG
SDPRGLKIGIVNKEVLDPSYCKDYLRQNISYRNEFNDCIYEHLSCHFLNEIQDEDFIKVH
YNNFNDSYKDAKQGKLIAVLEIQRNFSEALQYLHENFNANGIEFSQVGVHLDQTDMQIST
FVHNRLMKAYFKFAEKVMVGCKYNKDFVKPPLNISPMFGSLYKSFKKSILPLFILQGAYF
QSFGSSCYRISQSKVDGIWNRTLLAGVNPIEILIVQFIFSIVIMFVSFLSGILVLFLSIG
ITDFTTIFVSFILGISFCTAGIFMSVLLSSVTKNASFITAFIFGGSILAVTTSGLFWPVD
GQPEWLQQISYFLPFAYTSDSLRDIVMKGSTFLDFNVIKGFVNIFFWIIATFLLSFLVMK
KKKFS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10140.t5 PANTHER PTHR43038 ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 1 483 4.4E-72
3 g10140.t5 PANTHER PTHR43038:SF2 RH61964P 1 483 4.4E-72
1 g10140.t5 Pfam PF12698 ABC-2 family transporter protein 111 473 1.2E-22
17 g10140.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 75 -
22 g10140.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 76 94 -
12 g10140.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 95 100 -
19 g10140.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 101 118 -
15 g10140.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 119 288 -
18 g10140.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 289 311 -
11 g10140.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 312 331 -
21 g10140.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 332 361 -
16 g10140.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 362 366 -
24 g10140.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 367 388 -
13 g10140.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 389 394 -
23 g10140.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 395 417 -
14 g10140.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 418 456 -
20 g10140.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 457 479 -
10 g10140.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 480 485 -
9 g10140.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 101 120 -
4 g10140.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 289 311 -
6 g10140.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 332 361 -
8 g10140.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 366 388 -
7 g10140.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 395 417 -
5 g10140.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 457 479 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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.

Raw TPM values