Gene loci information

Transcript annotation

  • This transcript has been annotated as Steroidogenic acute regulatory protein-like.

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_2 g7080 g7080.t9 TTS g7080.t9 21069018 21069018
chr_2 g7080 g7080.t9 isoform g7080.t9 21069182 21072051
chr_2 g7080 g7080.t9 exon g7080.t9.exon1 21069182 21069949
chr_2 g7080 g7080.t9 cds g7080.t9.CDS1 21069182 21069949
chr_2 g7080 g7080.t9 exon g7080.t9.exon2 21070012 21070266
chr_2 g7080 g7080.t9 cds g7080.t9.CDS2 21070012 21070266
chr_2 g7080 g7080.t9 exon g7080.t9.exon3 21071237 21071373
chr_2 g7080 g7080.t9 cds g7080.t9.CDS3 21071237 21071373
chr_2 g7080 g7080.t9 exon g7080.t9.exon4 21071435 21071935
chr_2 g7080 g7080.t9 cds g7080.t9.CDS4 21071435 21071935
chr_2 g7080 g7080.t9 exon g7080.t9.exon5 21072003 21072051
chr_2 g7080 g7080.t9 cds g7080.t9.CDS5 21072003 21072051
chr_2 g7080 g7080.t9 TSS g7080.t9 21072512 21072512

Sequences

>g7080.t9 Gene=g7080 Length=1710
ATGGAAACGAGAAGTCTTAGAAGTGCCAATATCAATTTTCACAATTATGGTTCAACACAA
ACTCAACCAATAAATTTTTATTCTGAAGATTTTATAGCTGGATTTACTGGGAGTGCTAAT
CAAATTTCTCCTGTTCGTCGATTTTTCTGCCTATTTGTCACATTTGATCTCGTATTTGTT
GGACTGCTCTGGTTAATTTGTGTAGTTATCACTGGCGAAAATGTTTATAAAGCACTTCAG
GAACAAATACTAAACTATAATATTGAGACTTCTCTTTTCGATGTAGTCATTGCTGCTGGA
ATACGGTTCATAGTTCTGATATTCTTTTATGGAATTTGTAAAATCAACCATTGGTTTATT
ATTGCACTCACGACAACTCTCTCATGTGGATTCCTCATCGGAAAAGTTTTTTATTTCATA
TGGCCCTCTCAACAACCTGTGTTTCAAGTATTACTTATAATTATTTCATTTGTGATTTCT
TGGTTTGAAGCCTGGTTCTTAGATTCGCGTGTTTTTCCACAAGAACAATATTCCCGAACA
TTAACTAGTGTTTTGAGTACATCAGCTGACTCACGAACAACTCTACTTCCGCAGTATTTT
AATACTTTTGGTGTTGGCCGTGGTAGTGTTATACAAGGAACTGAAAGCATTCGGAATTTT
TATTCACCTGTAGAGAGCGATGATGAGGATGAAGAGTTTAAGCATTTAGGCTATGAAACA
GTTCAAAAAGCATTTGATTTACTTGAATCTACTGACTGGAAAGTGGAAAAGGTCACATCA
TGTAATGACACAATTTCAACATGCTCACGTCCAATTGGAAAAGTATATAAATTATCAGGC
AAAGTAAATTATTCACCAAAGAAATTGCTTCAAGAACTCTTTTATAATATTGAGAATATT
CCAACATGGAACCCAACACTTTTAGAAAATCGGATTATTCGAAAAATAGATAGCTGTACT
GATATTGCATATTCAGTTAGTGCTAGTGGTGGTGGTGGAATAGTGAAAAGTCGTGATTTT
GTTAATCTTCGTTGTTGGAAGTTGATCAAAGATTCTCGCATAGTTGAAAACTACAATATC
AATTCATCTTTAGATAAACTTTCTATCAAGACTCATTCATCTGATGGTGATAACGAAAAC
TCAGAAGATGACGAAGAAAAGAAAGATATTACAGAAGTTAAGAAAAGTAAAAAGAAAGTC
GTGAAATCATCCCATGAGAAACCTTTAAAGAAATCAGCAAGTGATAATGAGATAAACGAG
AGTAATGCTGATAATAATAGTTTTGAAACAAAAGAACAATTGAGTAAAAGTCTTGGAGCT
AATACAGTAACAACTGATGTTAGGTGCACGAGTGATGATGATGATGAATCCTTTTCAGAT
GCCCAAGACATAAAAACTGAACCAACAATTGTAAAGAATCTACAAAACTATGTGTTCGTT
AGTGCTGCAATCAGCATAGAATATCCACTATTTCCACCCAATTCAAAATACATTCGTGGA
GACAATATTATAAGTTGTTGGGCTATGCGACACATTCCAAATGAATCCGATTCTTGTATA
TTTGAATGGCTATTGTGCATTGATTTGAAAGGAAGTTTGCCGAAGTATATTTTAAATACT
GCCTTTGTCTCATTAATGACTGATTATATGATACATCTTCGAAATAGGGTTCAAGAACTT
AATGAAGAAAACAACACTCAGAGTGCCTAA

>g7080.t9 Gene=g7080 Length=569
METRSLRSANINFHNYGSTQTQPINFYSEDFIAGFTGSANQISPVRRFFCLFVTFDLVFV
GLLWLICVVITGENVYKALQEQILNYNIETSLFDVVIAAGIRFIVLIFFYGICKINHWFI
IALTTTLSCGFLIGKVFYFIWPSQQPVFQVLLIIISFVISWFEAWFLDSRVFPQEQYSRT
LTSVLSTSADSRTTLLPQYFNTFGVGRGSVIQGTESIRNFYSPVESDDEDEEFKHLGYET
VQKAFDLLESTDWKVEKVTSCNDTISTCSRPIGKVYKLSGKVNYSPKKLLQELFYNIENI
PTWNPTLLENRIIRKIDSCTDIAYSVSASGGGGIVKSRDFVNLRCWKLIKDSRIVENYNI
NSSLDKLSIKTHSSDGDNENSEDDEEKKDITEVKKSKKKVVKSSHEKPLKKSASDNEINE
SNADNNSFETKEQLSKSLGANTVTTDVRCTSDDDDESFSDAQDIKTEPTIVKNLQNYVFV
SAAISIEYPLFPPNSKYIRGDNIISCWAMRHIPNESDSCIFEWLLCIDLKGSLPKYILNT
AFVSLMTDYMIHLRNRVQELNEENNTQSA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g7080.t9 Coils Coil Coil 550 569 -
11 g7080.t9 Gene3D G3DSA:3.30.530.20 - 214 366 7.4E-38
12 g7080.t9 Gene3D G3DSA:3.30.530.20 - 458 563 2.0E-27
27 g7080.t9 MobiDBLite mobidb-lite consensus disorder prediction 371 435 -
28 g7080.t9 MobiDBLite mobidb-lite consensus disorder prediction 415 435 -
4 g7080.t9 PANTHER PTHR46121:SF4 STEROIDOGENIC ACUTE REGULATORY PROTEIN-LIKE 25 564 9.9E-151
5 g7080.t9 PANTHER PTHR46121 STEROIDOGENIC ACUTE REGULATORY PROTEIN-LIKE 25 564 9.9E-151
6 g7080.t9 PRINTS PR00978 Steroidogenic acute regulatory protein signature 289 308 4.6E-5
8 g7080.t9 PRINTS PR00978 Steroidogenic acute regulatory protein signature 308 325 4.6E-5
7 g7080.t9 PRINTS PR00978 Steroidogenic acute regulatory protein signature 325 345 4.6E-5
1 g7080.t9 Pfam PF10457 Cholesterol-capturing domain 43 226 1.9E-62
3 g7080.t9 Pfam PF01852 START domain 270 352 1.8E-10
2 g7080.t9 Pfam PF01852 START domain 476 562 1.4E-9
15 g7080.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 47 -
21 g7080.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 48 72 -
17 g7080.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 73 91 -
22 g7080.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 92 112 -
14 g7080.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 113 118 -
20 g7080.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 119 141 -
18 g7080.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 142 146 -
19 g7080.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 147 167 -
16 g7080.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 168 569 -
30 g7080.t9 ProSiteProfiles PS51439 MENTAL domain profile. 42 216 31.737
29 g7080.t9 ProSiteProfiles PS50848 START domain profile. 249 562 28.573
10 g7080.t9 SUPERFAMILY SSF55961 Bet v1-like 232 361 3.3E-20
9 g7080.t9 SUPERFAMILY SSF55961 Bet v1-like 477 561 2.01E-17
25 g7080.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 48 70 -
26 g7080.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 112 -
24 g7080.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 119 141 -
23 g7080.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 145 167 -

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:0008289 lipid binding 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.

Raw TPM values