Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Alpha-2-macroglobulin receptor-associated 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_3 g1898 g1898.t1 TTS g1898.t1 13739139 13739139
chr_3 g1898 g1898.t1 isoform g1898.t1 13739381 13740628
chr_3 g1898 g1898.t1 exon g1898.t1.exon1 13739381 13740404
chr_3 g1898 g1898.t1 cds g1898.t1.CDS1 13739381 13740404
chr_3 g1898 g1898.t1 exon g1898.t1.exon2 13740492 13740628
chr_3 g1898 g1898.t1 cds g1898.t1.CDS2 13740492 13740628
chr_3 g1898 g1898.t1 TSS g1898.t1 13740814 13740814

Sequences

>g1898.t1 Gene=g1898 Length=1161
ATGAAACCGAACAAAGTTTTAGTATTTCTTTTAATTGCGATAACTTTTTTAATTGTTGGG
GCAGACAAACCTAATAAATATTCAAAGAAAGCAAATACAAAATCTCACGATGATGAAACA
TACAACTCGGATTTCAGAAATCTCCAAAAACCCTTTCGTGTTAGTAAACTCAATTTAATA
TGGTCAAAGGCGGTGCATCGTTTGACAGAACCGAAACTCAAATCTTTATTCACTGAACTT
AAAATTCATGATAAAGAAGAACTTGCATTCAAACATATTAAAAGCGAAAAGCCGAAGCAA
TATGATGATGGTTTAAAAGAAGCAGAACTACGTAAAAAATTAATTGGAATAATGTCAACT
TATGGTTTGCTTGAGGTCATTGATATTGAAGATGTTCATAATCCAGAACATTACAAACAT
CATAAACCTATGGAGGGCAAGGTTAAGAATGATAATTATAAAAATAAAAGTTTATTTAAA
GATAAAAAATTAAACAAACTTTGGGAAAGAGCTGAAGTTAGTGGATCATTCTCTCCAGAA
GAATTGCAAGCTTTAAAAGAGGAATTTCAACATCATGAAGAAAAAGTCGATTTTTACTTC
AGTTTACTTGAAAATTTAGATAAAGTGAAGGACAAAAAAGATGATTTTCATCACAAGAAT
GCAGTAAATGAAGATGAGCTCGATGAAGCAAATGAAATTGCATTGAATGATGATGAAGAC
AAAAATGACATCGTTCAAGAGCAGAAACGAAATAAACATGAGGAATACATTGGTAAAGCA
AATGAAGTTCGAGAAAAGCACAGAGAAATACGCGATAATATTGATCGTTTGGAAAGAAAA
GTATCTCGTGGATCAAATTCCAGTGATTTTATTGAACCAAAAGTTCAAGGATTATGGAGA
ATCGCACAAGAGAGTGATTTTAATGCCGAACAGCTTGCATCGATTAAAGTAGAACTACAT
CATTTTGAATCAAGATTTTTAAAACTTAGACACATGCATGCTGAACATGCCCTTACAATG
GAAAAATATAAGAATGCAAAACCTGGTGATAAGCATCATGATAAAGTCAGTGAAATGGAA
GCAAAGATTCAAAAGCAGTCAAGAAAAGTAGAAAAATTACAAGAAGATATAGAAAAGAAA
TTGAGGAAAACAGAATTGTAG

>g1898.t1 Gene=g1898 Length=386
MKPNKVLVFLLIAITFLIVGADKPNKYSKKANTKSHDDETYNSDFRNLQKPFRVSKLNLI
WSKAVHRLTEPKLKSLFTELKIHDKEELAFKHIKSEKPKQYDDGLKEAELRKKLIGIMST
YGLLEVIDIEDVHNPEHYKHHKPMEGKVKNDNYKNKSLFKDKKLNKLWERAEVSGSFSPE
ELQALKEEFQHHEEKVDFYFSLLENLDKVKDKKDDFHHKNAVNEDELDEANEIALNDDED
KNDIVQEQKRNKHEEYIGKANEVREKHREIRDNIDRLERKVSRGSNSSDFIEPKVQGLWR
IAQESDFNAEQLASIKVELHHFESRFLKLRHMHAEHALTMEKYKNAKPGDKHHDKVSEME
AKIQKQSRKVEKLQEDIEKKLRKTEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g1898.t1 CDD cd14808 RAP_D3 290 385 1.51123E-22
13 g1898.t1 Coils Coil Coil 260 280 -
12 g1898.t1 Coils Coil Coil 356 386 -
10 g1898.t1 Gene3D G3DSA:1.20.81.10 - 49 130 1.6E-25
11 g1898.t1 Gene3D G3DSA:1.20.81.10 - 158 287 3.1E-22
9 g1898.t1 Gene3D G3DSA:1.20.81.10 - 288 386 3.0E-21
21 g1898.t1 MobiDBLite mobidb-lite consensus disorder prediction 345 386 -
3 g1898.t1 PANTHER PTHR16560 ALPHA-2-MACROGLOBULIN RECEPTOR-ASSOCIATED PROTEIN 6 383 2.0E-76
1 g1898.t1 Pfam PF06400 Alpha-2-macroglobulin RAP, N-terminal domain 14 128 3.9E-38
2 g1898.t1 Pfam PF06401 Alpha-2-macroglobulin RAP, C-terminal domain 158 383 6.2E-65
15 g1898.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
16 g1898.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
17 g1898.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 17 -
18 g1898.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 21 -
14 g1898.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 386 -
5 g1898.t1 SUPERFAMILY SSF47045 RAP domain-like 50 128 1.44E-23
4 g1898.t1 SUPERFAMILY SSF47045 RAP domain-like 149 287 2.09E-21
6 g1898.t1 SUPERFAMILY SSF47045 RAP domain-like 286 383 1.31E-22
8 g1898.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 21 -
7 g1898.t1 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 27 -
20 g1898.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 21 -

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:0048019 receptor antagonist activity MF
GO:0005783 endoplasmic reticulum CC
GO:0008201 heparin binding MF
GO:0050750 low-density lipoprotein particle receptor 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