Gene loci information

Transcript annotation

  • This transcript has been annotated as Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 1.

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 g2664 g2664.t2 TSS g2664.t2 19453870 19453870
chr_3 g2664 g2664.t2 isoform g2664.t2 19454310 19455938
chr_3 g2664 g2664.t2 exon g2664.t2.exon1 19454310 19454343
chr_3 g2664 g2664.t2 cds g2664.t2.CDS1 19454310 19454343
chr_3 g2664 g2664.t2 exon g2664.t2.exon2 19454898 19455194
chr_3 g2664 g2664.t2 cds g2664.t2.CDS2 19454898 19455194
chr_3 g2664 g2664.t2 exon g2664.t2.exon3 19455290 19455938
chr_3 g2664 g2664.t2 cds g2664.t2.CDS3 19455290 19455936
chr_3 g2664 g2664.t2 TTS g2664.t2 NA NA

Sequences

>g2664.t2 Gene=g2664 Length=980
ATGGAAGAAGAAATCAAGAGTTATGCTAGCAACGAAATTGGTGAATCATCGACAATACCA
AACTATCATCATCCGTCTGCATCAAAAATGAATCATAAGAATGGCTTTCAAGATGAAGAT
GACGGTTTAGGTCCTATGCCATTAAATTGGGAAAAAGCAATTACAGAAAACGGTGAAATA
TATTTTATTGATCACACGACAGGCCAATCACATTGGCTTGATCCAAGATTGAGAAATTTT
CAAAAGAAATCACTTGAAGAATGCGAAGATGATGAACTTCCGTATGGGTGGGAAAGAATC
GTTGATCCAGAATATGGAATATATTATATAGACCATGTGAATAGACGAACTCAATATGAA
AATCCTGTGATACAAGCAAAACGTTCTTTAGAAATGCAACAACAGCAACAGCAGAGACTT
GAAGTTGCATCAAATTACATGCCAGAAACAGTTGACTTGCCATTGGAACCTAAGAACTTT
TTCACAAAGAACCCAGCAGAATTATTGGGTGAAAGAATTCAAACAACATTAGTCAAATCA
CAGCGTGGTTTGGGTTTTACTGTAATTGGTGGTGATTGTAATGATGAAAATATTGATGAA
TTTCTTCAAATAAAATCAATTGTTCCAAATTCACCGGCATCATTTGATGGAAAACTTAAA
ACTGGAGACATCTTGGTATTTGTGAATCACATTTGCGTTCTTGGTTTTACACATCATGAA
ATGGTCAACATTTTTCAATCAATTATGCCTGGTGATGAAGTTCATTTGGATGTATGTCGA
GGATATAAGTTGCCATTTGATCCAAGCGATCCTAATACAGAAATTGTAACTACAATTGCT
GTAAATGGACTTAATGATGATGTTGAGAAGAACAGACTTTATTTAGACATTCTTAATGAC
AATTATAATTTTCTTGACATGTCAAACGATGCGGATCTAAGTTTTAAAAATCAATCAGCA
AAAAGTTCATTTGAAATTCC

>g2664.t2 Gene=g2664 Length=326
MEEEIKSYASNEIGESSTIPNYHHPSASKMNHKNGFQDEDDGLGPMPLNWEKAITENGEI
YFIDHTTGQSHWLDPRLRNFQKKSLEECEDDELPYGWERIVDPEYGIYYIDHVNRRTQYE
NPVIQAKRSLEMQQQQQQRLEVASNYMPETVDLPLEPKNFFTKNPAELLGERIQTTLVKS
QRGLGFTVIGGDCNDENIDEFLQIKSIVPNSPASFDGKLKTGDILVFVNHICVLGFTHHE
MVNIFQSIMPGDEVHLDVCRGYKLPFDPSDPNTEIVTTIAVNGLNDDVEKNRLYLDILND
NYNFLDMSNDADLSFKNQSAKSSFEI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g2664.t2 CDD cd00201 WW 47 77 2.71348E-9
14 g2664.t2 CDD cd00201 WW 94 124 1.73635E-8
12 g2664.t2 CDD cd00992 PDZ_signaling 176 259 1.10772E-15
11 g2664.t2 Gene3D G3DSA:2.20.70.10 - 37 82 1.9E-14
10 g2664.t2 Gene3D G3DSA:2.20.70.10 - 93 124 2.8E-15
9 g2664.t2 Gene3D G3DSA:2.30.42.10 - 156 285 1.4E-42
4 g2664.t2 PANTHER PTHR10316:SF40 LD27118P-RELATED 33 294 8.9E-106
5 g2664.t2 PANTHER PTHR10316 MEMBRANE ASSOCIATED GUANYLATE KINASE-RELATED 33 294 8.9E-106
2 g2664.t2 Pfam PF00397 WW domain 47 75 3.2E-8
3 g2664.t2 Pfam PF00397 WW domain 93 122 3.1E-8
1 g2664.t2 Pfam PF00595 PDZ domain 175 256 8.7E-9
15 g2664.t2 ProSitePatterns PS01159 WW/rsp5/WWP domain signature. 97 122 -
20 g2664.t2 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 44 77 14.895
21 g2664.t2 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 91 124 12.826
19 g2664.t2 ProSiteProfiles PS50106 PDZ domain profile. 174 247 14.717
17 g2664.t2 SMART SM00456 ww_5 45 77 4.3E-9
18 g2664.t2 SMART SM00456 ww_5 92 124 3.8E-8
16 g2664.t2 SMART SM00228 pdz_new 182 262 1.0E-16
8 g2664.t2 SUPERFAMILY SSF51045 WW domain 41 79 2.09E-11
7 g2664.t2 SUPERFAMILY SSF51045 WW domain 89 125 9.6E-12
6 g2664.t2 SUPERFAMILY SSF50156 PDZ domain-like 150 264 7.89E-25

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