General information for g2239.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tight junction protein ZO-1.
Parent gene
- The parent gene g2239 is located on chr_3: 16254333..16254975 (- 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_3 | g2239 | g2239.t1 | isoform | g2239.t1 | 16241573 | 16254975 |
| chr_3 | g2239 | g2239.t1 | exon | g2239.t1.exon1 | 16241573 | 16242028 |
| chr_3 | g2239 | g2239.t1 | cds | g2239.t1.CDS1 | 16241573 | 16242028 |
| chr_3 | g2239 | g2239.t1 | exon | g2239.t1.exon2 | 16242291 | 16244277 |
| chr_3 | g2239 | g2239.t1 | cds | g2239.t1.CDS2 | 16242291 | 16244277 |
| chr_3 | g2239 | g2239.t1 | exon | g2239.t1.exon3 | 16244342 | 16244436 |
| chr_3 | g2239 | g2239.t1 | cds | g2239.t1.CDS3 | 16244342 | 16244436 |
| chr_3 | g2239 | g2239.t1 | exon | g2239.t1.exon4 | 16244507 | 16244581 |
| chr_3 | g2239 | g2239.t1 | cds | g2239.t1.CDS4 | 16244507 | 16244581 |
| chr_3 | g2239 | g2239.t1 | exon | g2239.t1.exon5 | 16254351 | 16254609 |
| chr_3 | g2239 | g2239.t1 | cds | g2239.t1.CDS5 | 16254351 | 16254609 |
| chr_3 | g2239 | g2239.t1 | exon | g2239.t1.exon6 | 16254707 | 16254975 |
| chr_3 | g2239 | g2239.t1 | cds | g2239.t1.CDS6 | 16254707 | 16254975 |
| chr_3 | g2239 | g2239.t1 | TSS | g2239.t1 | NA | NA |
| chr_3 | g2239 | g2239.t1 | TTS | g2239.t1 | NA | NA |
Sequences
>g2239.t1 Gene=g2239 Length=3141
ATGATGGAAATAACAAATGAAATTGATGATAATGAAACTGAAAGTGATGTAATTGATGAT
GATGATGATTTGACTGAATCATCAGAACAAATTTTTCTACAAAATCTTTCAAAAATTATT
GCCGATAGCGAAAGAACGTCTGCCAATGAGAGTCTTTTATCTATAGCGGAAGTTAAATCA
ATTACAAATCAGCCACAAAATCAACAACCGCAATTTGGTTACTTTCTACCAATTTCTTAT
GCGCCACCAATACGACTACGTTCAAAAAGAGATACACAACATGAGTCTAGCCGTTCGCCC
ACACCTCTAACGCAACCAAATCACAATCACCATCAGCAGTATAGTAGCAACAACGTAAAT
AATCATATCAATGGCAGATCAAAACGATTCAGTTCTCCTGCGTATAGCGATTATGGATGT
GATAAAGTAAACAGTCGCAAATTAAGTGGAAAACATGAAAAACGAAGTATTCGTTCGATG
AATGAGGCTATTGAAGTTCTTGCTGATCAAGTTGAAGAAGAAAATTTGGGCGAGAGAACT
TCATGGGAATATCACACTGTGATTTTATTCAGAGTTGCTGGATATGGTTTTGGCATCGCT
GTGTCGGGTGGAAGAGATAATCCGCATTTTGCTAATGGAGATCCCTCGATTGCAGTTAGT
GATGTGCTTAAAGGTGGTCCAGCAGAGGGAAAACTTGAAACAAACGATCGAATAATAACA
GCAAATGGAATCTCATTGGAAAATGTTGAATATGCAACAGCAGTTCAAGTTTTAAGAGAT
AGTGGCAATACAGTGACACTTGTTGTTAAAAGACGTGCACCATTGCAATCAAGTGGAAAT
TATCAACAAGCTGGTATCAGTAATAGTGCAATTCCAACTCATCAGCATCAGCAAAGTCTC
AGTTCAATCGGATCTCAACAGCAAATTAAACTTGTCATCAATAAGAGCAGTAAGAAAGAA
GATTTTGGAATCGTTCTTGGCTGTAGATTATTCATCAAAGAGATCTCATCGAAAACACGT
GAGCAACTTGCACTTAATGGTTACTCACTGCAAGAAGGTGACATTGTTACTCGAGTTCAT
AATACAAATTGCAATGACATGATGAGCATAAAGGAAGCAAGAAAAATTATGGATAGTTGC
AAAGAACGATTAAATCTTGCTGTAATAAGAGATCCAAATGCAATAGTGCCACCACCTCAG
CCAAACACTTCAATTTACTCTCATCAACAGCAAATGTCAAATTGCTCGAATATCGAAGAT
GCTTTCAATTCATCAGCTTATTCAACACAGAATCTCTATGTGCAACCACCAACTAGACCA
TCATTAAGCACATTACTTGATGACAAGTGCAATCTTACACCACGAGGTAGAGCTCGAGGA
CCAATAACTGATATGTCACAGCTTTCACAACTTGATCGTCCATCATCACCACCTCATCAT
TCAAGAAGTCGTAGTGGAATTGAAATGATAGATGAACCGCCTCGACCGCCACCACCTCGT
GATGAATTTTATGGCACAAGACGAATGCAAGCAGAAACGACTGAACCAAGATATATTACA
TTCCAGAAAGAAGGTTCTGTTGGTATCAGACTAACAGGTGGCAATGAAGTTGGAATTTTT
GTGACTGCAGTTCAACAAAATAGTCCAGCATCAATGCAAGGACTTGTGCCTGGTGATAAA
TTGCTAAAAGTTAATGACATGGATATGAATGGAGTGACTAGAGAAGAAGCAGTTTTATTC
CTTCTTTCACTTCAAGACCGCATTGATTTAATTGTGCAATATTGCAAAGATGAATATGAA
AATGTCGTTCAAAATCAACGTGGTGATTCATTTCATATTAAGACACATTTTCATTATGAT
GCTCCAACCAAGAATGAACTTTCATTTAAATCAGGTGATGTGTTTAGAGTGATTGATACT
CTTCACAATGGAGTTGTCGGTTCATGGCAAGTTATGAGAATTGGAAGAGGACAACAAGAA
CTTCAGCGTGGAATCATTCCAAATAAAGCAAGAGCTGAAGAACTTGCAACAGCTCAGTTT
AATGCTACAAAGAAAGAAACAACAAATACAGAATCAAGAATGAATTTCTTTAGACGTAAA
AGAACAAATCATCGCAGATCGAAGTCTTTATCACGTGAAAATTGGGATGATGTTGTTTTT
GCTGATTCAGTCTCGAAATTCCCAGCTTATGAACGAGTTGTTTTAAGACACCCAGGATTC
ATTCGTCCAGTAGTTTTATTTGGACCAGTTGCAGATCTCGCTAGAGAAAGATTGATCAAA
GATCATCCAGAAAAGTTTACAGCACCATTACAAGATACTGATAAATCAAAATGTGGTATT
GTCAGATTGTCAAATATTCGTGACATTATGGATAGAGGAAAGCATGCATTACTTGATATC
ACACCAAATGCAGTTGATCGTCTGAATTATGCTCAATTTTATCCAATTGTTGTGTTTTTG
AAAGCCGATTCAAAGCATACAATTAAACAATTGCGACAAGGTATTCCAAAAACAGCACAC
AAAAGTTCAAAGAAACTTTTTGAGCAATGCCAGAAACTTGATCGAATGTGGTCACATGTG
TTTAGCACTACAATTAATTTAAATGATGCAGAATCGTGGTATCGAAAAACTAAAGAGACT
GTCGATAAGCAACAAGCTGGTGCTGTGTGGATGTCAGAGACAAAGGAATCAAGATTTACC
TCAGATATTTTTCTTCCTTATTTATCACCGCCATTATGTCCTTATGCTTGTTGTAATCCA
ACACGTCCGAGAGTTCATGTTGCTAGTTCATTAGCTTATTATCAAAGGCCTCGCTATTCT
ATGCAATTGCCTGCTCCTGTGAATTATCAGATTGTTCCGATTCGTCACTCAAATAGCTTT
TATCGAACGCCAACAAGAAGCTTACAAAGTTTAAATACTTTTGGCAATTTCCGTGCAATT
GATGATAATAATAATAGCTCGCGTACTGGAACTCTGAGAAATCACAATGAAGAGCGTAAA
TCGCCATATTATTATAATGAACTAACTCAAATGCATGCAACTAATCCGCAACAACAATTT
ATACCAATTACTAATCACATTAATGATGATAACTTTACAGATTTCATTAATACCATTCAT
CATTCTGAAACAATGTCATGA
>g2239.t1 Gene=g2239 Length=1046
MMEITNEIDDNETESDVIDDDDDLTESSEQIFLQNLSKIIADSERTSANESLLSIAEVKS
ITNQPQNQQPQFGYFLPISYAPPIRLRSKRDTQHESSRSPTPLTQPNHNHHQQYSSNNVN
NHINGRSKRFSSPAYSDYGCDKVNSRKLSGKHEKRSIRSMNEAIEVLADQVEEENLGERT
SWEYHTVILFRVAGYGFGIAVSGGRDNPHFANGDPSIAVSDVLKGGPAEGKLETNDRIIT
ANGISLENVEYATAVQVLRDSGNTVTLVVKRRAPLQSSGNYQQAGISNSAIPTHQHQQSL
SSIGSQQQIKLVINKSSKKEDFGIVLGCRLFIKEISSKTREQLALNGYSLQEGDIVTRVH
NTNCNDMMSIKEARKIMDSCKERLNLAVIRDPNAIVPPPQPNTSIYSHQQQMSNCSNIED
AFNSSAYSTQNLYVQPPTRPSLSTLLDDKCNLTPRGRARGPITDMSQLSQLDRPSSPPHH
SRSRSGIEMIDEPPRPPPPRDEFYGTRRMQAETTEPRYITFQKEGSVGIRLTGGNEVGIF
VTAVQQNSPASMQGLVPGDKLLKVNDMDMNGVTREEAVLFLLSLQDRIDLIVQYCKDEYE
NVVQNQRGDSFHIKTHFHYDAPTKNELSFKSGDVFRVIDTLHNGVVGSWQVMRIGRGQQE
LQRGIIPNKARAEELATAQFNATKKETTNTESRMNFFRRKRTNHRRSKSLSRENWDDVVF
ADSVSKFPAYERVVLRHPGFIRPVVLFGPVADLARERLIKDHPEKFTAPLQDTDKSKCGI
VRLSNIRDIMDRGKHALLDITPNAVDRLNYAQFYPIVVFLKADSKHTIKQLRQGIPKTAH
KSSKKLFEQCQKLDRMWSHVFSTTINLNDAESWYRKTKETVDKQQAGAVWMSETKESRFT
SDIFLPYLSPPLCPYACCNPTRPRVHVASSLAYYQRPRYSMQLPAPVNYQIVPIRHSNSF
YRTPTRSLQSLNTFGNFRAIDDNNNSSRTGTLRNHNEERKSPYYYNELTQMHATNPQQQF
IPITNHINDDNFTDFINTIHHSETMS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g2239.t1 | CDD | cd00992 | PDZ_signaling | 185 | 270 | 1.85983E-19 |
| 17 | g2239.t1 | CDD | cd00992 | PDZ_signaling | 516 | 593 | 1.35058E-17 |
| 19 | g2239.t1 | CDD | cd11859 | SH3_ZO | 612 | 673 | 1.7456E-34 |
| 14 | g2239.t1 | Gene3D | G3DSA:2.30.42.10 | - | 172 | 283 | 9.8E-28 |
| 15 | g2239.t1 | Gene3D | G3DSA:2.30.42.10 | - | 291 | 395 | 2.1E-6 |
| 16 | g2239.t1 | Gene3D | G3DSA:2.30.42.10 | - | 503 | 610 | 1.1E-24 |
| 13 | g2239.t1 | Gene3D | G3DSA:2.30.30.40 | SH3 Domains | 611 | 893 | 1.9E-93 |
| 12 | g2239.t1 | Gene3D | G3DSA:3.40.50.300 | - | 739 | 885 | 1.9E-93 |
| 28 | g2239.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 24 | - |
| 26 | g2239.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 88 | 109 | - |
| 25 | g2239.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 438 | 498 | - |
| 27 | g2239.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 463 | 482 | - |
| 29 | g2239.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 484 | 498 | - |
| 5 | g2239.t1 | PANTHER | PTHR13865 | TIGHT JUNCTION PROTEIN | 89 | 970 | 0.0 |
| 6 | g2239.t1 | PANTHER | PTHR13865:SF28 | POLYCHAETOID, ISOFORM O | 89 | 970 | 0.0 |
| 4 | g2239.t1 | Pfam | PF00595 | PDZ domain | 187 | 269 | 7.8E-15 |
| 3 | g2239.t1 | Pfam | PF00595 | PDZ domain | 523 | 593 | 3.3E-12 |
| 1 | g2239.t1 | Pfam | PF07653 | Variant SH3 domain | 612 | 673 | 7.4E-10 |
| 2 | g2239.t1 | Pfam | PF00625 | Guanylate kinase | 784 | 883 | 4.0E-12 |
| 34 | g2239.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 186 | 273 | 19.561 |
| 33 | g2239.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 310 | 392 | 9.994 |
| 32 | g2239.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 523 | 596 | 15.702 |
| 31 | g2239.t1 | ProSiteProfiles | PS50002 | Src homology 3 (SH3) domain profile. | 608 | 676 | 12.504 |
| 30 | g2239.t1 | ProSiteProfiles | PS50052 | Guanylate kinase-like domain profile. | 781 | 882 | 16.611 |
| 20 | g2239.t1 | SMART | SM00228 | pdz_new | 195 | 273 | 2.0E-14 |
| 21 | g2239.t1 | SMART | SM00228 | pdz_new | 320 | 392 | 1.1 |
| 22 | g2239.t1 | SMART | SM00228 | pdz_new | 525 | 596 | 3.0E-17 |
| 23 | g2239.t1 | SMART | SM00326 | SH3_2 | 611 | 675 | 0.0046 |
| 24 | g2239.t1 | SMART | SM00072 | gk_7 | 704 | 885 | 3.1E-40 |
| 7 | g2239.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 180 | 272 | 1.26E-21 |
| 8 | g2239.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 296 | 398 | 1.86E-6 |
| 9 | g2239.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 511 | 610 | 3.06E-26 |
| 11 | g2239.t1 | SUPERFAMILY | SSF50044 | SH3-domain | 611 | 676 | 4.33E-10 |
| 10 | g2239.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 783 | 892 | 1.59E-15 |
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 transcript has been annotated with K05701 (tight junction protein 1)
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.
