General information for g14132.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glutamate receptor ionotropic, NMDA 2B.
Parent gene
- The parent gene g14132 is located on chr_1: 34845808..34847151 (- strand)
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 | g14132 | g14132.t1 | TTS | g14132.t1 | 34839481 | 34839481 |
| chr_1 | g14132 | g14132.t1 | isoform | g14132.t1 | 34840318 | 34847151 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon1 | 34840318 | 34840459 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS1 | 34840318 | 34840459 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon2 | 34843335 | 34843623 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS2 | 34843335 | 34843623 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon3 | 34843685 | 34844010 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS3 | 34843685 | 34844010 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon4 | 34844072 | 34844612 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS4 | 34844072 | 34844612 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon5 | 34844718 | 34845424 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS5 | 34844718 | 34845424 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon6 | 34845503 | 34845699 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS6 | 34845503 | 34845699 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon7 | 34845807 | 34845898 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS7 | 34845807 | 34845898 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon8 | 34845979 | 34846319 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS8 | 34845979 | 34846319 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon9 | 34846470 | 34846764 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS9 | 34846470 | 34846764 |
| chr_1 | g14132 | g14132.t1 | exon | g14132.t1.exon10 | 34847010 | 34847151 |
| chr_1 | g14132 | g14132.t1 | cds | g14132.t1.CDS10 | 34847010 | 34847151 |
| chr_1 | g14132 | g14132.t1 | TSS | g14132.t1 | NA | NA |
Sequences
>g14132.t1 Gene=g14132 Length=3072
ATGAAAAATTTGTTGACTTTATGTTTGCTCATAGGAGCTTCTACTGCCTTTAGAAATCGT
GGCAGTAATACACTAAGTAATAGCAATAGTCAATCATCAAATCAATTAAATATAGGATTA
GTTGCTCCTCATACTAATTTCGGAAAACGTGAATATTTGCGAGCAATAAACTCAGCTGTA
ACTGGTTTATCGAAAGCACGTGGTCAGAAATTGACTTTTCTCAAAGATTATGAATTTAAT
CCAGGAAACATTCACTTTGAGGCACTAACATTAAATCCAAGTCCAACTGCAATTCTGACA
ATTTTATGTAAACAATTTCTTCACCAAAATGTCAGTGCAATATTATATATGATGAATTAT
GAACAATATGGTAGATCTACTGCTTCAGCTCAATATTTTCTTCAACTTGCCGGCTATCTA
GGCATTCCTGTTATTGGTTGGAATGCTGATAATTCTGGTTTAGAAAGAAGAGCATCACAA
TCAACACTTCAATTACAATTAGCACCATCAATTGAACATCAAGCTGCTGCTATGCTTTCA
ATATTAGAGAGATATAAATGGCATCAATTCAGTATTGTCACATCTCCCATCGCAGGTCAT
GATGATTTCGTGCAAGCTGTACGAGAACATGTAGCAGAAATGCAAGATCGCTTTAAATTT
ACGATTCTTAATTCAATTATCGTAACACGCTCCAGTGACTTGACAGATTTAATAAACAGT
GAAGCTCGAGTAATGTTACTTTATTGCACAAAAAGTGAAGCCATTGATATTTTGAAAGCC
GCCGAGACTCATCACTTGACTGGTGAAAATTATGTTTGGGTCGTGACACAATCGGTTATC
GAAAATACACAACCACACAATAGCTTTCCCGTTGGCATGCTTGGTGTGCATTTCGACACA
TCTTCTGCCAGTCTCGTCAATGAGATCACCACAGCAATAAAAGTTTATGCGTCTGGTGTT
GAGAGTTACTTAAATGATGTTCATAATCGTGGATTCAATCGAACGTTAAATACTCATGGT
TTATCATGTGAAGACGAGGGAAGAGGAAGATGGGATGTAGGAGAAACATTCTATCGTTAT
TTGCGCAACGTGTCCATTGAGGGTGATGCAAATAAACCAAATATTGAGTTTAATGCCGAT
GGCGACTTGAAATTTGCTGAATTGAAAATTATGAATTTAAGACCAAGTGTCACATCAAAA
GGTATTGTTTGGGAAGAAATTGGTGTATGGAAATCATGGCAAACAAATGCGCAACAAAGA
TTAGATATAAGAGATATTTATTGGCCTGGAAACTCACATGTTCCTCCTCAGGGAGTTCCG
GAAAAATTTCATTTAAAAATCACATTTTTAGAAGAAGCACCCTACATAAATCTTTCGCCA
CCTGATCCAATTTCTGGAAAATGTTTAATGGATCGTGGAATAATTTGTCGAATTGCATCA
GACGCTGATGTCGTAGACATTGATCAAGCTCATAAAAATGGTTCATATTTTCAATGCTGT
AGTGGTTTTTGCATCGATCTTTTAGAAAAATTTGCTGAAGAATTGGGCTTCACTTATGAG
CTTGTGCGTGTTGAAGATGGAAAATGGGGAGTGCTCGACAATGGCAAATGGAATGGTTTA
ATTGCTGAATTAGTAAATCGTAAAACGGATATGGTTTTAACATCACTCATGATTAATGCA
GAACGTGAAGCCGTAGTTGATTTTAGTGAACCATTTATGGAAACAGGAATTGCAATTGTT
GTCGCAAAAAGAACCGGCATAATCTCGCCAACTGCTTTCTTAGAACCGTTTGATACTGCA
AGTTGGATGTTAGTCGGAATTGTAGCAATTCAAGCAGCAACTTTTATGATTTTCTTATTT
GAATTTTTAAGTCCAAGTGGTTTTGATATGAAATTTCAAGTTCCACAATCAACACCTGGA
AAGAATGATGTTTTACCGTATCGTTTTTCACTTTTCCGCACTTATTGGCTCGTGTGGGCT
GTTCTCTTTCAAGCAGCTGTTCATGTTGATTCTCCTCGTGGTTTTACAGCTCGTTTTATG
ACAAATGTTTGGGCAATGTTTGCTGTGGTATTTTTGGCTATCTATACTGCTAATCTTGCC
GCTTTCATGATTACTCGAGAAGAATTTCATGAATTTTCTGGTCTTGATGATACTCGACTA
TCTCGTCCTTTCTCACATAAGCCGCCAATTAAATTTGGCACAATACCATATAGTCATACT
GATTCAACAATCGCTAAATATTTCAAAGAAATGCATTATTATATGAGGAAATTCAATAAG
TCATCTGTTTCTGAAGGTGTTTCGAGCGTTTTGAGTGGTTCACTTGATGCATTCATTTAT
GATGGAACAGTTTTGGATTATTTAGTACAACAAGATGAAGATTGTCGATTATTGACTGTT
GGACAATGGTATGCCATGACAGGTTATGGACTTGCTTTTTCAAGAAATTCAAAGTATGTC
AATATGTTCAATAAAAGATTACTTGAATATCGAGCCAATGGTGATTTAGAGCGTTTGCGA
AGATATTGGATGACTGGAACATGTAAATATGGAAAACAAGAACATAAATCTTCTGATCCT
TTGGCATTAGAACAATTTTTGTCTGCATTCTTATTATTGATGGCTGGAATTTTATTGGCA
GCATTGCTACTTCTTTTGGAACATCTTTATTTTAAATACTTCCGTGCTAGCTTAGCAAAA
TCAGATCGAGGAGGTTGTTGTGCTCTGATTTCTCTTTCAATGGGCAAAAGCTTGACGTTT
AGAGGTGCAGTTTATGAAACAACCGAGTTAATTAGAAATCATCGTTGCAAAGATGTAATT
TGTGACACTCACTTATGGAAAGTTAAACACGAATTAGACATTTCACGTTTACGCGTTAGA
CAACTTGAAAAGACTATGGACAAATATGGAATTCAACCACCACAGATAAAATTAGCATCA
ATGTCAAATCTTATAAGTGATAGACATGAGAAACCTCATTTGCTTGGAAATTTGAGTCTT
GGTGGCAGTGCACAAGATCTTTATCGTTGGACCTATAAAACTGAAATAGCTGAAATGGAA
ACTGTCCTTTAA
>g14132.t1 Gene=g14132 Length=1023
MKNLLTLCLLIGASTAFRNRGSNTLSNSNSQSSNQLNIGLVAPHTNFGKREYLRAINSAV
TGLSKARGQKLTFLKDYEFNPGNIHFEALTLNPSPTAILTILCKQFLHQNVSAILYMMNY
EQYGRSTASAQYFLQLAGYLGIPVIGWNADNSGLERRASQSTLQLQLAPSIEHQAAAMLS
ILERYKWHQFSIVTSPIAGHDDFVQAVREHVAEMQDRFKFTILNSIIVTRSSDLTDLINS
EARVMLLYCTKSEAIDILKAAETHHLTGENYVWVVTQSVIENTQPHNSFPVGMLGVHFDT
SSASLVNEITTAIKVYASGVESYLNDVHNRGFNRTLNTHGLSCEDEGRGRWDVGETFYRY
LRNVSIEGDANKPNIEFNADGDLKFAELKIMNLRPSVTSKGIVWEEIGVWKSWQTNAQQR
LDIRDIYWPGNSHVPPQGVPEKFHLKITFLEEAPYINLSPPDPISGKCLMDRGIICRIAS
DADVVDIDQAHKNGSYFQCCSGFCIDLLEKFAEELGFTYELVRVEDGKWGVLDNGKWNGL
IAELVNRKTDMVLTSLMINAEREAVVDFSEPFMETGIAIVVAKRTGIISPTAFLEPFDTA
SWMLVGIVAIQAATFMIFLFEFLSPSGFDMKFQVPQSTPGKNDVLPYRFSLFRTYWLVWA
VLFQAAVHVDSPRGFTARFMTNVWAMFAVVFLAIYTANLAAFMITREEFHEFSGLDDTRL
SRPFSHKPPIKFGTIPYSHTDSTIAKYFKEMHYYMRKFNKSSVSEGVSSVLSGSLDAFIY
DGTVLDYLVQQDEDCRLLTVGQWYAMTGYGLAFSRNSKYVNMFNKRLLEYRANGDLERLR
RYWMTGTCKYGKQEHKSSDPLALEQFLSAFLLLMAGILLAALLLLLEHLYFKYFRASLAK
SDRGGCCALISLSMGKSLTFRGAVYETTELIRNHRCKDVICDTHLWKVKHELDISRLRVR
QLEKTMDKYGIQPPQIKLASMSNLISDRHEKPHLLGNLSLGGSAQDLYRWTYKTEIAEME
TVL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g14132.t1 | Gene3D | G3DSA:3.40.50.2300 | - | 84 | 386 | 2.5E-92 |
| 17 | g14132.t1 | Gene3D | G3DSA:3.40.50.2300 | - | 170 | 438 | 2.5E-92 |
| 16 | g14132.t1 | Gene3D | G3DSA:3.40.190.10 | - | 500 | 859 | 3.6E-104 |
| 15 | g14132.t1 | Gene3D | G3DSA:3.40.190.10 | - | 576 | 809 | 3.6E-104 |
| 14 | g14132.t1 | Gene3D | G3DSA:1.10.287.70 | - | 586 | 887 | 3.6E-104 |
| 4 | g14132.t1 | PANTHER | PTHR18966:SF391 | NMDA RECEPTOR 2, ISOFORM C | 76 | 928 | 0.0 |
| 5 | g14132.t1 | PANTHER | PTHR18966 | IONOTROPIC GLUTAMATE RECEPTOR | 76 | 928 | 0.0 |
| 7 | g14132.t1 | PRINTS | PR00177 | NMDA receptor signature | 517 | 545 | 2.5E-13 |
| 9 | g14132.t1 | PRINTS | PR00177 | NMDA receptor signature | 648 | 672 | 2.5E-13 |
| 6 | g14132.t1 | PRINTS | PR00177 | NMDA receptor signature | 679 | 706 | 2.5E-13 |
| 8 | g14132.t1 | PRINTS | PR00177 | NMDA receptor signature | 866 | 890 | 2.5E-13 |
| 2 | g14132.t1 | Pfam | PF01094 | Receptor family ligand binding region | 103 | 395 | 3.8E-28 |
| 3 | g14132.t1 | Pfam | PF10613 | Ligated ion channel L-glutamate- and glycine-binding site | 498 | 584 | 1.4E-29 |
| 1 | g14132.t1 | Pfam | PF00060 | Ligand-gated ion channel | 600 | 877 | 4.2E-28 |
| 24 | g14132.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 25 | g14132.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 26 | g14132.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 11 | - |
| 31 | g14132.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 16 | - |
| 23 | g14132.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 601 | - |
| 28 | g14132.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 602 | 623 | - |
| 19 | g14132.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 624 | 643 | - |
| 27 | g14132.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 644 | 663 | - |
| 22 | g14132.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 664 | 682 | - |
| 30 | g14132.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 683 | 704 | - |
| 20 | g14132.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 705 | 865 | - |
| 29 | g14132.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 866 | 886 | - |
| 21 | g14132.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 887 | 1023 | - |
| 36 | g14132.t1 | SMART | SM00079 | GluR_14 | 484 | 846 | 1.8E-71 |
| 35 | g14132.t1 | SMART | SM00918 | Lig_chan_Glu_bd_2 | 488 | 546 | 3.3E-17 |
| 10 | g14132.t1 | SUPERFAMILY | SSF53822 | Periplasmic binding protein-like I | 30 | 440 | 1.22E-43 |
| 11 | g14132.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 499 | 845 | 3.36E-55 |
| 13 | g14132.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
| 12 | g14132.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 18 | - |
| 33 | g14132.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 601 | 623 | - |
| 32 | g14132.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 683 | 705 | - |
| 34 | g14132.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 869 | 891 | - |
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:0038023 | signaling receptor activity | MF |
| GO:0016020 | membrane | CC |
| GO:0015276 | ligand-gated ion channel activity | MF |
| GO:0005216 | ion channel activity | MF |
| GO:0004970 | ionotropic glutamate receptor activity | MF |
| GO:0006811 | ion transport | BP |
KEGG
Orthology
- This transcript has been annotated with K05210 (glutamate receptor ionotropic, NMDA 2B)
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.
