Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Prolactin regulatory element-binding protein.

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 g9619 g9619.t4 TTS g9619.t4 4305152 4305152
chr_1 g9619 g9619.t4 isoform g9619.t4 4305218 4306654
chr_1 g9619 g9619.t4 exon g9619.t4.exon1 4305218 4305303
chr_1 g9619 g9619.t4 cds g9619.t4.CDS1 4305218 4305303
chr_1 g9619 g9619.t4 exon g9619.t4.exon2 4305367 4306654
chr_1 g9619 g9619.t4 cds g9619.t4.CDS2 4305367 4306363
chr_1 g9619 g9619.t4 TSS g9619.t4 4306739 4306739

Sequences

>g9619.t4 Gene=g9619 Length=1374
ATGGGGTCGAAAAAGAACATGATAACCGATTGCCTTTTAGCCAAAGTAAATTTTCCACTT
TATGCTGCTGAAATGCTAACAAGCAGGTAAATTAAATAGTGAAAGTTTTATTTCTTATGA
AAAATTAATCACTTCTTAATTGAATGATGCAGACATTTGCTTGTCGCTGGTGGCGGTGGC
TCAGCGAAAACTGGAGTAGCAAATGGTTTTGAAATATATGAATTGTATCACAATGGAAAG
TATTTTGTGGCAGAAGAAATACAAAGACACGAAACAGGGTCAAGAGCCGTAATGAATATG
TCATTAAAACACATCGATCGAAGAGCACTGCTCGTTGCTGGTCAAGAAGGCCATAGTCAA
ATGTTTGTTATCAGTTCAAAAGTAGGTCAATTGCCTACAAAAGAAACTCAAATTTCGAGT
CGAAGGGAATCATCATCAACGGAAGTTAGACAAAGAAGAAGAACAGAATCTACGAGTCAA
GATACTCCTAAATCTCAAATATCGACAACAACTGACTCCTCAGGAAATCAAATGAAACGA
ATTTACTTCGATATTAAAGCTGCCGATTCAGTACAAACAGATTTTTCTACTGAACCTTAT
CAAAGAGTCGTGAGAATTTGTTTAAATGGAAAATTCATGGCAACAGCAGGAATTGATGGC
CACGTTCGTATATGGCATTTTCCACGAATGACACCATTTCATGATATAAAAGCTCATGAG
AAAGAGTTGGATGACTTGGATTTTAGTCCAGATGGCAAATACTTAATATCAATTGCAAAA
GATGGTATTGCATCAGTTTGGTCAGTGAACAATGGAAAAGAGGCTTTGAAATTGAAATGG
ACACCACCAGAGAATGTTAAATATTTATATAAAAGATGTCGATATTCAACAATTGAAGGA
GAAACAGACAAATATAGACTCTTTACAATATCAAATCCACTACATAAAGCTGGAAAACAA
AGAGGATTTTTGCAACAATGGAATATTGAGACTGGTCGACTCAATAATATAGTTAGCATA
GATGAAAGCCTTTCAGCATTAGCCGTTCGTGATGATGGTCGTTTTGTATCAATTGGAACA
ATGTTTACTGGTTCAGTTATGATTTATATTGCATTTAGTTTACAACAAGTGCTTTATGTG
CCGAATGCTCATTCAATGTTTGTCACTGGTCTTGAATTTATTCCAGTTCTAAATAAAGAT
GCACCGCCAATTTCAAGTGACGCTGAAGCTTCTGTTATATCATACTCTGTTGACAATCGT
ATCTGCATTCATAGTTTGCAATATAGACATACGTTGCCAGCATGGGCTGCAATATTTTTA
ATAATTGTTATTCTTTTCCTCACATTTTTAATGTGTTCTTACTTTGGTATATAA

>g9619.t4 Gene=g9619 Length=360
MNMSLKHIDRRALLVAGQEGHSQMFVISSKVGQLPTKETQISSRRESSSTEVRQRRRTES
TSQDTPKSQISTTTDSSGNQMKRIYFDIKAADSVQTDFSTEPYQRVVRICLNGKFMATAG
IDGHVRIWHFPRMTPFHDIKAHEKELDDLDFSPDGKYLISIAKDGIASVWSVNNGKEALK
LKWTPPENVKYLYKRCRYSTIEGETDKYRLFTISNPLHKAGKQRGFLQQWNIETGRLNNI
VSIDESLSALAVRDDGRFVSIGTMFTGSVMIYIAFSLQQVLYVPNAHSMFVTGLEFIPVL
NKDAPPISSDAEASVISYSVDNRICIHSLQYRHTLPAWAAIFLIIVILFLTFLMCSYFGI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g9619.t4 MobiDBLite mobidb-lite consensus disorder prediction 35 77 -
16 g9619.t4 MobiDBLite mobidb-lite consensus disorder prediction 48 62 -
15 g9619.t4 MobiDBLite mobidb-lite consensus disorder prediction 63 77 -
3 g9619.t4 PANTHER PTHR23284 PROLACTIN REGULATORY ELEMENT BINDING PROTEIN 11 357 8.4E-67
2 g9619.t4 Pfam PF00400 WD domain, G-beta repeat 110 128 0.061
1 g9619.t4 Pfam PF00400 WD domain, G-beta repeat 135 171 0.019
6 g9619.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 257 -
8 g9619.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 258 275 -
7 g9619.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 276 336 -
9 g9619.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 337 359 -
5 g9619.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 360 360 -
18 g9619.t4 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 112 180 16.296
19 g9619.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 139 180 13.449
14 g9619.t4 SMART SM00320 WD40_4 91 129 2.5
13 g9619.t4 SMART SM00320 WD40_4 132 171 8.3E-5
12 g9619.t4 SMART SM00320 WD40_4 277 328 78.0
4 g9619.t4 SUPERFAMILY SSF50978 WD40 repeat-like 105 329 3.85E-23
11 g9619.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 258 280 -
10 g9619.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 337 359 -

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:0005515 protein binding MF

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