General information for g12142.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Inactivation-no-after-potential D protein.
Parent gene
- The parent gene g12142 is located on chr_1: 21330838..21334977 (- 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 | g12142 | g12142.t1 | isoform | g12142.t1 | 21308521 | 21334977 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon1 | 21308521 | 21308700 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS1 | 21308521 | 21308700 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon2 | 21308928 | 21309062 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS2 | 21308928 | 21309062 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon3 | 21309130 | 21309288 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS3 | 21309130 | 21309288 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon4 | 21309353 | 21309706 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS4 | 21309353 | 21309706 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon5 | 21310002 | 21310103 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS5 | 21310002 | 21310103 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon6 | 21310169 | 21310286 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS6 | 21310169 | 21310286 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon7 | 21310400 | 21310494 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS7 | 21310400 | 21310494 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon8 | 21310659 | 21310852 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS8 | 21310659 | 21310852 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon9 | 21321518 | 21321608 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS9 | 21321518 | 21321608 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon10 | 21321790 | 21321866 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS10 | 21321790 | 21321866 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon11 | 21322499 | 21322577 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS11 | 21322499 | 21322577 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon12 | 21322813 | 21322935 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS12 | 21322813 | 21322935 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon13 | 21323897 | 21323983 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS13 | 21323897 | 21323983 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon14 | 21324224 | 21324330 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS14 | 21324224 | 21324330 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon15 | 21324458 | 21324557 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS15 | 21324458 | 21324557 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon16 | 21327771 | 21327856 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS16 | 21327771 | 21327856 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon17 | 21328114 | 21328166 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS17 | 21328114 | 21328166 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon18 | 21330838 | 21331811 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS18 | 21330838 | 21331811 |
| chr_1 | g12142 | g12142.t1 | exon | g12142.t1.exon19 | 21334975 | 21334977 |
| chr_1 | g12142 | g12142.t1 | cds | g12142.t1.CDS19 | 21334975 | 21334977 |
| chr_1 | g12142 | g12142.t1 | TSS | g12142.t1 | NA | NA |
| chr_1 | g12142 | g12142.t1 | TTS | g12142.t1 | NA | NA |
Sequences
>g12142.t1 Gene=g12142 Length=3117
ATGCTACGCTTGATAAGCTACTCATCGGCTGATTCATTCATCAAACGTGATTATGTGTTG
GATATAATTGATAAAAACTCAAAATTCTCTGATGTATGCTATGCCGATAGCTTCATTCAC
ATAACAAGTGCGGACAGTATCAAAGCGATATACTCGATGAGTAAGGACAGCAAGAAACAG
TGCTTAGTTCAGCATAGGCGCGAGTATTATAATGATTTTGAGGATTGCTTGCGTGACTAT
AAAAATCAAAAAATCAAGTCGATTCAAAAGCAAACAAAATATCATCATTCAGATGGCGAT
AATGGTGAGAGCGATTCAGAATATGTTGACTGTACGGATAGCAATGTAGTTGGCATAGAA
TTTAAACATCAGTCAGTATTAGCCTCAAAGTCAATGCCACATGTCCCAACGGAGACTTTT
CATGATAATTTATGTCGTGTGCCAGAGAATATAAAACTCGCAGCCATTACGGCAATTGCA
TCAGAGCGAGTTACAAAAACCGCAAAAAAGACAATACCGAATGATCCCATGTGCATTACC
AAACAACATCCTACGGCCACAAAAATGACGATAATGAAGTCGAATGAGGTAGTTGCTCCA
TTAAACAAATGTGAAAGCGTAGAACATTTAAAGGCATACAATAAAAATAATTACAACAAT
CAAAAAAATATAATCGATAAAAATGACACGAAAGGTGTGAACGTGGATGAATGTAGCAGT
GAAACGAACAAGGTCAATGTGAATAAAAAAGAAATAGAAAATGAATGTCCATCTACATCA
ACTGCATTGATTACTGAACGAAACAACAATAAAATATCCACAGTTATTAACGCACAACGA
TTGCCTCAATTGATCGACGCTTCAAGCATTGAAGTGCGTGTTGCCACAAACACACCTGTC
GTTGTAAAGAAGGATGAGTTGGCAAAGAGGAAGAGTTGTAAGAAGAGACAGGGTTCAATC
AAAGACCTTTCACAAAGAAAAATGACTGTGACAACAACAGCTACTGATAACAATAAAATC
AATAATTTAGATGATGCAACATGGAGTCAGGAACGTGAAGTGGTGCTTGAACGTGTGCAA
AATAAATCATTTGGAATATCAATAGTTGGAGGAAAGGTTAATGTATCAGGAGATTCGCTT
GTGTCGGGCATTTTCATCAAAAGTATAATTGCGGCAGATCAATGTGGCTTATTGAAAGTT
GGTGATAGAATTCTAGCTGTCGATGGCGTGGATATTCGACATTCAAGTCACGAAATGGCT
GTTAAAACGATAAAAAATGCTGGCGATAAAATGACGCTTCGTGTTCAAAGTTTAAATACT
GGGAGCACTGATGAAAATCCGATTGAGTTTATGAAGAGAATTCCGCCACCAATAACACCA
TCTAAAACACCAATTCCCGAGATCATTCAGGAGGGTGTAGAAAAAGAGAAAGAGAATTTG
AAAGAAGAGATGAAAGACTCTGTGAAACCAATGCAGCCCATGCCTATAATAAAGGAGCCA
TCAAATAAGAAGGGAACATCAAATGGAGTTACGAGTCCGGAGATTGATGATGAAGAAAAT
TTAATGGTTATGGTGAATAACAGTACTGGCTACACTCCAATTCCCGACACAGAATCTGAA
GGGTCTTCTGATGAGGATGAAGACAATCGTGAAATGGAGGGAAAAACATATTCAGCAGCT
GGAAATGAGATTGACCGTGCGAGTGCAGGCAACGTTAAACGCTCCAAAGAAGAAATCGCA
GCAGATCCAGAAAAGGAGAACGAATTTGGTTACACAATGAACAAAATAAAGAAACGTTAT
GGAAATTTGGGAACAGTATTATGTCACACAATCGATAGAGGAAATAGCTCTAGCATTGGA
ATATCATTAGCTGGACATCGTGATCGAAATAAAATGGCATGCTTTATTGCCGGTATCAAT
CCAAAGGGAATTGCATCGTCTGGTGGATTAGAAATTGGCGACGAGATTCTTGAGGTTAAT
GGCATTGTACTACATGGAAGATGTCATTTGAATGCATCAGCAATAATCAAAGGACTGCCT
GGTTCTGTTATGCAATTTATTGTCCTTAGAAGAAAGCAAGCATTAGAAGACTTAGCTGTT
AAGCCTGTAACTCAATTCCCTGTTGAGATCTCAAACGAGGACGCTTTTGCCACTTTTAAA
AATGTTCGTCATGTAACAATCAAGAAGGGCAATCAGAGCTTAGGTATTATGATTATTGAA
GGAAAGCATGCGGAAGTTGGGCAGGGCATTTTTGTATCAGATATTCAAGAAGGATCTAAT
GCTGAAAAGGCCGGCCTTAGTATTGGTGACATGATATTAGCTGTTAACAAAGATTCCCTT
CTTGGCTGTAATTATGAAACGGCAGCGAGTATGCTTAAGAAGACAGAAGGAATCGTGGTG
CTTACTGTATGTAATCCAAATAAAAAAGACAATGAGACAGTTATCAAAAAAGACATAGAG
CAGCCGGAAAAGGGACCAAGTCGTCCACTAACGCCAAAGCCACAGCCTTCACCAGCAAAA
GAAGCCGCATCAGATCCAACGACCTGCGAAATTGCCAATAATCACAACACCGTCATTGAA
ATAAAATTGGAAAATAATCCGATTGGTATTCAAGTTGCTGGTGGTTGTGATACGTTAGTT
AATACTGGAGCTGTAATAGTTAACATATTACCTGGCAGCATTGCCGAAAAAGACAAACGT
TTGCAAGTGTTCGATCAAATACTCGAAATAAATTCGACCAAGATCACGCAAGAGTTGACA
TGTGAGCTAATTCAGCGAGCTGTGAAACAAGTGCAATCAAAAGTGAAAATGACGATATAT
CGTGCCGATCCACCCGAAGTAGAATCAATGGAAATTGAGTTAACAAAGAAACCTGGCAAG
AACCTTGGAATTGGATTTTTCACTTCAAATCCTCGTGGAATGCTTGTCACAGATATCGTT
ACCGGAGGTATAGCCGATCTTGATGGTCGCATTCAAAAAAGTGATATTGTAACACATGTC
AATTCGGAAAAAGTAAGCAATATGAGCGTAGAAGAATGTTCGACACTGTTAAAGGCGATT
CAAGGAAAGGTCACCTTTAAAATATTGCGAGCGAAGCCAAAGAAACGTAGCAGTTAA
>g12142.t1 Gene=g12142 Length=1038
MLRLISYSSADSFIKRDYVLDIIDKNSKFSDVCYADSFIHITSADSIKAIYSMSKDSKKQ
CLVQHRREYYNDFEDCLRDYKNQKIKSIQKQTKYHHSDGDNGESDSEYVDCTDSNVVGIE
FKHQSVLASKSMPHVPTETFHDNLCRVPENIKLAAITAIASERVTKTAKKTIPNDPMCIT
KQHPTATKMTIMKSNEVVAPLNKCESVEHLKAYNKNNYNNQKNIIDKNDTKGVNVDECSS
ETNKVNVNKKEIENECPSTSTALITERNNNKISTVINAQRLPQLIDASSIEVRVATNTPV
VVKKDELAKRKSCKKRQGSIKDLSQRKMTVTTTATDNNKINNLDDATWSQEREVVLERVQ
NKSFGISIVGGKVNVSGDSLVSGIFIKSIIAADQCGLLKVGDRILAVDGVDIRHSSHEMA
VKTIKNAGDKMTLRVQSLNTGSTDENPIEFMKRIPPPITPSKTPIPEIIQEGVEKEKENL
KEEMKDSVKPMQPMPIIKEPSNKKGTSNGVTSPEIDDEENLMVMVNNSTGYTPIPDTESE
GSSDEDEDNREMEGKTYSAAGNEIDRASAGNVKRSKEEIAADPEKENEFGYTMNKIKKRY
GNLGTVLCHTIDRGNSSSIGISLAGHRDRNKMACFIAGINPKGIASSGGLEIGDEILEVN
GIVLHGRCHLNASAIIKGLPGSVMQFIVLRRKQALEDLAVKPVTQFPVEISNEDAFATFK
NVRHVTIKKGNQSLGIMIIEGKHAEVGQGIFVSDIQEGSNAEKAGLSIGDMILAVNKDSL
LGCNYETAASMLKKTEGIVVLTVCNPNKKDNETVIKKDIEQPEKGPSRPLTPKPQPSPAK
EAASDPTTCEIANNHNTVIEIKLENNPIGIQVAGGCDTLVNTGAVIVNILPGSIAEKDKR
LQVFDQILEINSTKITQELTCELIQRAVKQVQSKVKMTIYRADPPEVESMEIELTKKPGK
NLGIGFFTSNPRGMLVTDIVTGGIADLDGRIQKSDIVTHVNSEKVSNMSVEECSTLLKAI
QGKVTFKILRAKPKKRSS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 26 | g12142.t1 | CDD | cd00992 | PDZ_signaling | 351 | 436 | 6.32285E-20 |
| 25 | g12142.t1 | CDD | cd00992 | PDZ_signaling | 610 | 683 | 8.9139E-15 |
| 24 | g12142.t1 | CDD | cd00992 | PDZ_signaling | 722 | 804 | 1.7669E-18 |
| 22 | g12142.t1 | CDD | cd00992 | PDZ_signaling | 857 | 939 | 1.05209E-10 |
| 23 | g12142.t1 | CDD | cd00992 | PDZ_signaling | 951 | 1029 | 1.04429E-9 |
| 21 | g12142.t1 | Gene3D | G3DSA:2.30.42.10 | - | 338 | 442 | 5.3E-25 |
| 19 | g12142.t1 | Gene3D | G3DSA:2.30.42.10 | - | 588 | 694 | 1.7E-20 |
| 20 | g12142.t1 | Gene3D | G3DSA:2.30.42.10 | - | 707 | 804 | 7.0E-26 |
| 17 | g12142.t1 | Gene3D | G3DSA:2.30.42.10 | - | 839 | 946 | 2.7E-21 |
| 18 | g12142.t1 | Gene3D | G3DSA:2.30.42.10 | - | 947 | 1038 | 2.3E-24 |
| 33 | g12142.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 530 | 581 | - |
| 32 | g12142.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 813 | 847 | - |
| 6 | g12142.t1 | PANTHER | PTHR19964 | MULTIPLE PDZ DOMAIN PROTEIN | 305 | 458 | 1.8E-96 |
| 9 | g12142.t1 | PANTHER | PTHR19964:SF79 | INACTIVATION-NO-AFTER-POTENTIAL D PROTEIN | 305 | 458 | 1.8E-96 |
| 8 | g12142.t1 | PANTHER | PTHR19964 | MULTIPLE PDZ DOMAIN PROTEIN | 538 | 950 | 1.8E-96 |
| 11 | g12142.t1 | PANTHER | PTHR19964:SF79 | INACTIVATION-NO-AFTER-POTENTIAL D PROTEIN | 538 | 950 | 1.8E-96 |
| 7 | g12142.t1 | PANTHER | PTHR19964 | MULTIPLE PDZ DOMAIN PROTEIN | 948 | 1033 | 1.8E-96 |
| 10 | g12142.t1 | PANTHER | PTHR19964:SF79 | INACTIVATION-NO-AFTER-POTENTIAL D PROTEIN | 948 | 1033 | 1.8E-96 |
| 4 | g12142.t1 | Pfam | PF00595 | PDZ domain | 354 | 436 | 1.2E-12 |
| 3 | g12142.t1 | Pfam | PF00595 | PDZ domain | 612 | 683 | 1.0E-9 |
| 2 | g12142.t1 | Pfam | PF00595 | PDZ domain | 725 | 803 | 3.2E-12 |
| 1 | g12142.t1 | Pfam | PF00595 | PDZ domain | 861 | 939 | 6.6E-11 |
| 5 | g12142.t1 | Pfam | PF00595 | PDZ domain | 959 | 1029 | 3.6E-9 |
| 34 | g12142.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 353 | 439 | 17.491 |
| 36 | g12142.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 608 | 691 | 14.717 |
| 38 | g12142.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 724 | 807 | 18.275 |
| 35 | g12142.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 857 | 943 | 15.662 |
| 37 | g12142.t1 | ProSiteProfiles | PS50106 | PDZ domain profile. | 951 | 1032 | 16.144 |
| 29 | g12142.t1 | SMART | SM00228 | pdz_new | 362 | 439 | 6.6E-16 |
| 31 | g12142.t1 | SMART | SM00228 | pdz_new | 617 | 692 | 9.6E-13 |
| 27 | g12142.t1 | SMART | SM00228 | pdz_new | 732 | 807 | 3.9E-16 |
| 28 | g12142.t1 | SMART | SM00228 | pdz_new | 866 | 943 | 2.0E-13 |
| 30 | g12142.t1 | SMART | SM00228 | pdz_new | 962 | 1032 | 1.7E-11 |
| 15 | g12142.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 344 | 436 | 2.1E-19 |
| 14 | g12142.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 608 | 693 | 1.22E-17 |
| 12 | g12142.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 704 | 808 | 9.86E-23 |
| 13 | g12142.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 834 | 945 | 1.71E-16 |
| 16 | g12142.t1 | SUPERFAMILY | SSF50156 | PDZ domain-like | 944 | 1033 | 1.97E-16 |
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 K13804 (inactivation no afterpotential D protein)
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. There were no conditions that were differentially expressed