General information for g9434.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Neuroligin-3.
Parent gene
- The parent gene g9434 is located on chr_1: 2952201..2972696 (- 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 | g9434 | g9434.t1 | isoform | g9434.t1 | 2952201 | 2972696 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon1 | 2952201 | 2953087 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS1 | 2952201 | 2953087 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon2 | 2955088 | 2955163 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS2 | 2955088 | 2955163 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon3 | 2955333 | 2955389 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS3 | 2955333 | 2955389 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon4 | 2962163 | 2962301 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS4 | 2962163 | 2962301 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon5 | 2962447 | 2962566 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS5 | 2962447 | 2962566 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon6 | 2962645 | 2962789 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS6 | 2962645 | 2962789 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon7 | 2962925 | 2963003 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS7 | 2962925 | 2963003 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon8 | 2963069 | 2963217 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS8 | 2963069 | 2963217 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon9 | 2963894 | 2964043 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS9 | 2963894 | 2964043 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon10 | 2964109 | 2964288 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS10 | 2964109 | 2964288 |
| chr_1 | g9434 | g9434.t1 | exon | g9434.t1.exon11 | 2972495 | 2972696 |
| chr_1 | g9434 | g9434.t1 | cds | g9434.t1.CDS11 | 2972495 | 2972696 |
| chr_1 | g9434 | g9434.t1 | TSS | g9434.t1 | NA | NA |
| chr_1 | g9434 | g9434.t1 | TTS | g9434.t1 | NA | NA |
Sequences
>g9434.t1 Gene=g9434 Length=2184
ATGCCGCTCATAACAAAACCATCAAGTAGAATTCCACCGCCACCACATGCCTTACAAGTT
GGCAGTAATTGCAATACACTTAATAAAAAAAGCTGTGTAAAAAATAACATGAATCATCAG
CATCAACCAACAGGTAATATGGGTGGTGTCGGTGGTACTGGTGGTGTCAATCAAACGCAA
CAGAATCCGATGGATGAACTGCCTGGCTCGAGAGGCGACAGCAGCGGTAATGGAAATGCG
AATCCTGTGAAATATCCTGTGATTGTGTTTGTTCATGGTGAATCGTATGAATGGAATAGC
GGCAATGCTTACGATGGTAGTGCATTAGCTAGTTATGGCCAAATTTTAGTCGTTACAATC
AATTATCGATTAGGCATTCTTGGTTTCCTAAATGCAAATGTCGATCGTTATTCAAAGTCA
CCTGCCAATTACGGTCTAATGGATATTTTAGCAGCATTGCATTGGATACAGGAAAATATT
GAGGCATTTGGCGGTGACAAAAAGAGCGTGACATTAGCTGGACATGGATCAGGTGCAGCT
TGTGTTCATTTTCTAATTGCCTCACAGGCCGTGCCTGATAGCCTTTTATTTCATCGTGCA
ATATTAATGTCAGGCACAGGTCTTGCACCATGGTCACTTGTTGGTGATCCTGCCTATTAT
GCTGCCATTGTTGCGCATCATTCACTACTTTCAACACCTGTACGTGTGCCCGATTTCGGC
AATGCATTTGGACCAAGTGTCGATGGTGTTTATTTGGTGAATACGGGTGATTTTAGTCAG
CAGGATCCATATGATTTTGGTTCACTCAGTGGTAGTGATACAAAACGACAAATGCACTAT
CAAAATAATCTCAATATAATAAATTCAGTATTGTTAAGGAAATTAGCTATAAACAAATTA
TCAAGATACGATTTATTGGTAGGCGTTACACGTGCTGAGTCATATTTTATTTTTAATGCT
GGTGACGTTCAGTATGGCATTGAGTCAGATAGAAAGACAAAAATTTTTAAGAAATTATGT
AAGAATGATGAAACATTAGAAGCATTAAGTGATGCTCAAGTTGTTGCTCCGGCCACTTTA
ACTGTTGATTTACATTCTGCTGATCATCGAAATTCATTTCTTTATGTGTTCGATTATCAA
ACTAAATTTGGAGATTATCCTCAGCGACAGGGATGCATACATGGCGAGGATTTACCATAC
TTTTTGGAGCACCACTCGTCGATAATCGAGATAGAAAAGCAAAAAATATTGAGTGGACGC
CATATTGAGAATGTTCATAAAAAGTACCTCAATATTGATACAAAACCAAAACTAAAAAAT
CATTATCGTGCTCATCGTCTATCATTTTGGCTCAATTTAATTCCCGACCTTCATAAGCCA
GGGAATGATGATGTGCCATTATCTCACCATGAATTGGAAAATGATGATGTTGTTGATCAA
AGCAAATCGACAGTTAAACCATTGATACCACAACGTGATAAAGGAGCAAATGGAACATCA
CCTAATAGTACAGTACTTTTCTCATCGCCAATTTTTAATTATACATTGCAGCGCAGTAAC
AATCGCAATAATAGTGGATCACATAATGCTCAAATAAATTCAAATTTGTCAGGCGGCAAA
ACGAAAAGCAATGTGCCTGGCATCGACCATGATATGTACGATGAGAATGCAACATCGGGA
CCACCAACAGAAGATGGTTTTGCTGCATATAGCACAGCATTAAGCGTAACAATTGCAATT
GGCTGCAGTCTATTAATTCTCAATGTGCTCATTTTTGCTGGCGTTTATTATCAACGTGAC
AAGACTCGACTCAATGAGCCGAGAACGATAAAAAAGCGTAATGAAAATGGTCAAATGCCA
AACAATATTTGTGGTGATCTTGAAACACTTACAATTCATTCAAAAAGTGATCCTGCCACG
ATTCTTGGTCATCATCATTCATTGCATCAACTGCCACCACCTGAATTTGCCGATATGCCG
CTCATAACAAAACCATCAAGTAGAATTCCACCGCCACCACATGCCTTACAAGTTGGCAGT
AATTGCAATACACTTAATAAAAAAAGCTGTGTAAAAAATAACATGAATCATCAGCATCAA
CCAACAGGTAATATGGGTGGTGTCGGTGGTACTGGTGGTGTCAATCAAACGCAACAGAAT
CCGATGGATGAACTGCGTGTATGA
>g9434.t1 Gene=g9434 Length=727
MPLITKPSSRIPPPPHALQVGSNCNTLNKKSCVKNNMNHQHQPTGNMGGVGGTGGVNQTQ
QNPMDELPGSRGDSSGNGNANPVKYPVIVFVHGESYEWNSGNAYDGSALASYGQILVVTI
NYRLGILGFLNANVDRYSKSPANYGLMDILAALHWIQENIEAFGGDKKSVTLAGHGSGAA
CVHFLIASQAVPDSLLFHRAILMSGTGLAPWSLVGDPAYYAAIVAHHSLLSTPVRVPDFG
NAFGPSVDGVYLVNTGDFSQQDPYDFGSLSGSDTKRQMHYQNNLNIINSVLLRKLAINKL
SRYDLLVGVTRAESYFIFNAGDVQYGIESDRKTKIFKKLCKNDETLEALSDAQVVAPATL
TVDLHSADHRNSFLYVFDYQTKFGDYPQRQGCIHGEDLPYFLEHHSSIIEIEKQKILSGR
HIENVHKKYLNIDTKPKLKNHYRAHRLSFWLNLIPDLHKPGNDDVPLSHHELENDDVVDQ
SKSTVKPLIPQRDKGANGTSPNSTVLFSSPIFNYTLQRSNNRNNSGSHNAQINSNLSGGK
TKSNVPGIDHDMYDENATSGPPTEDGFAAYSTALSVTIAIGCSLLILNVLIFAGVYYQRD
KTRLNEPRTIKKRNENGQMPNNICGDLETLTIHSKSDPATILGHHHSLHQLPPPEFADMP
LITKPSSRIPPPPHALQVGSNCNTLNKKSCVKNNMNHQHQPTGNMGGVGGTGGVNQTQQN
PMDELRV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g9434.t1 | Gene3D | G3DSA:3.40.50.1820 | - | 71 | 467 | 1.5E-77 |
| 11 | g9434.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 22 | - |
| 10 | g9434.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 700 | 727 | - |
| 4 | g9434.t1 | PANTHER | PTHR43903:SF21 | NEUROLIGIN 3, ISOFORM B | 78 | 342 | 2.7E-252 |
| 7 | g9434.t1 | PANTHER | PTHR43903 | NEUROLIGIN | 78 | 342 | 2.7E-252 |
| 2 | g9434.t1 | PANTHER | PTHR43903:SF21 | NEUROLIGIN 3, ISOFORM B | 342 | 401 | 2.7E-252 |
| 5 | g9434.t1 | PANTHER | PTHR43903 | NEUROLIGIN | 342 | 401 | 2.7E-252 |
| 3 | g9434.t1 | PANTHER | PTHR43903:SF21 | NEUROLIGIN 3, ISOFORM B | 409 | 727 | 2.7E-252 |
| 6 | g9434.t1 | PANTHER | PTHR43903 | NEUROLIGIN | 409 | 727 | 2.7E-252 |
| 1 | g9434.t1 | Pfam | PF00135 | Carboxylesterase family | 81 | 405 | 1.7E-58 |
| 14 | g9434.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 566 | - |
| 15 | g9434.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 567 | 597 | - |
| 13 | g9434.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 598 | 727 | - |
| 9 | g9434.t1 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 82 | 460 | 6.76E-59 |
| 8 | g9434.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 573 | 595 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed