General information for g10621.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Nuclear pore complex protein Nup153.
Parent gene
- The parent gene g10621 is located on chr_1: 10785819..10790587 (+ 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 | g10621 | g10621.t1 | TSS | g10621.t1 | 10785500 | 10785500 |
| chr_1 | g10621 | g10621.t1 | isoform | g10621.t1 | 10785819 | 10790587 |
| chr_1 | g10621 | g10621.t1 | exon | g10621.t1.exon1 | 10785819 | 10787535 |
| chr_1 | g10621 | g10621.t1 | cds | g10621.t1.CDS1 | 10785819 | 10787535 |
| chr_1 | g10621 | g10621.t1 | exon | g10621.t1.exon2 | 10787599 | 10787778 |
| chr_1 | g10621 | g10621.t1 | cds | g10621.t1.CDS2 | 10787599 | 10787778 |
| chr_1 | g10621 | g10621.t1 | exon | g10621.t1.exon3 | 10787840 | 10789863 |
| chr_1 | g10621 | g10621.t1 | cds | g10621.t1.CDS3 | 10787840 | 10789863 |
| chr_1 | g10621 | g10621.t1 | exon | g10621.t1.exon4 | 10789917 | 10790039 |
| chr_1 | g10621 | g10621.t1 | cds | g10621.t1.CDS4 | 10789917 | 10790039 |
| chr_1 | g10621 | g10621.t1 | exon | g10621.t1.exon5 | 10790176 | 10790244 |
| chr_1 | g10621 | g10621.t1 | cds | g10621.t1.CDS5 | 10790176 | 10790244 |
| chr_1 | g10621 | g10621.t1 | exon | g10621.t1.exon6 | 10790330 | 10790445 |
| chr_1 | g10621 | g10621.t1 | cds | g10621.t1.CDS6 | 10790330 | 10790445 |
| chr_1 | g10621 | g10621.t1 | exon | g10621.t1.exon7 | 10790515 | 10790587 |
| chr_1 | g10621 | g10621.t1 | cds | g10621.t1.CDS7 | 10790515 | 10790587 |
| chr_1 | g10621 | g10621.t1 | TTS | g10621.t1 | 10791506 | 10791506 |
Sequences
>g10621.t1 Gene=g10621 Length=4302
ATGCGAAAGTCTGCAGATGCAATCGATGAAATAAAAGAAATAAAAAATATCAGTGGAAGA
AGAAGCATTCGAGAAGGAGTAGACAATTACATTTATGATGAAACGCTTCTGAATCGCAAA
AAAGCGATTAATAACAATGAAGATAGATCAATTTCAGAGCCGCCACAATCACGATATAAC
AATCATACTGTCAGTGACTCTGTGAGACTGAAAACAATTCGTGAAAAGATGGACGACGAC
AACAATCAATGTTCTTCAGACGAAGACTTGTCAAAATCAAATAGTCAACTAAATGGAAGT
GATCTAGATCTCGAAATACCCGAAAGTGCATCGCAAACACCTACTCCAACTCCATTAAAT
CAATTAATGGGTGGAAATGCAAGAAGAATCAATAGTGAAACAAATCTCAACGACTCAAAG
AGACGACTTACTGGATTTATGGGAAACAAAAGTAAACGTTTTTGTGCTTCAACGAGTGAA
TTAAGTTTTTCATCACATCTAGAAACAAACAAATCCCTCTTTTCGCCAAAAAATAATCGA
GGAAGTCGATCTGGAAGTCTTTATGGCAGCAACATGTCATTAAATAGTAGCAACAATAGT
CGATTGTTCATGGTCAATTCACCTTTCTATAATGGAAAGACAACGTTTGGAGGAGCTTCT
GCTTATCCACGAAAAGATATCAATCAACACAAGATACTCAGAAATCCGATACAAATGAGA
CCATCATCAAGTCTATCAAATTCGTCAAACACATCTACAAAATCTGAAGGAGCTGCTGGA
TATAATATGCCTGAATCAAATGCAGCAAAGCGAATTTTAGAAATTATGACGCAATTTAGT
GGTCCACTTAAAGAAACGCGAAATATGGGTAATAATATTAATTCTATGATGAAAATTCCA
GGATTAGTGCAAAATCGTAAACGTTTTGGTGAAGAAGATTTGCAGTTGAATCGTAGTATT
GCTCTATCAAGACCTTCAGCACCATATGCTCGATCAATTGGAGGAACACAAACAGCAGCA
CCACCAAAAAATACTCCAGAATCAATTGCGTCATCATTGCTGAATACATCAAGTCCTTCA
CCTCAAATACCTACAATGTCGCAACTATTGAAAATGAAAAGACTTCAAAATTATACAGAA
CGTGCACGTGAAATTGCAAATCGATCTGAAAACTTCCTTAATCAAGTGCATGAGTACAAA
TTACCATCTTCAAATGATGATTTTGAAAGTAAACGAGGCGGCTCAACAATGGAAAATAAT
TCAAGTTCATCTTCATTACTAAAAATGAAGAATAATATTACGAAAAATTTATTGAGAAAT
GACAAAACAGTTTTTGATCAGCCTCCAGAGCCCTTAAATTTGCCGAATATTCAATTGCCT
GAATTAAAGTCTTATCCAAAGTTTGATATTAAGCTACCAGTAACAACAACAGAAAGTAAT
GCAAATTCTTATTCAAAAAATAAATCTATTGAAACCCCATCAATGGAAATGTCAACGATA
TCATCTCATAATGTGAATACTAATGAAAAGACATCATCACTAAAATCAATATCGACGACC
AACAGAGATAACTTTAAATTTTCAATGCCAATAATCTTTGATTCGGATTCTGAAACAGTA
GATACATCAAGAATTATAACTAATGATAAATTTATCTTTAGTAAACCTATTAACATAAAG
GAAATAGAAAATGTTAACACTACTAATGTACATTTTGACATTAAATCACAACAGTCAACA
GTAAAAGATGATTTGTTTAAGAATCTTGTTGCCAAACAAAATTCTCAATGGGAATGCAGT
TCGTGCCTCTCTCGTAATGATAATGAAAAGACAAAGTGCTTATGCTGTGACACAGTCAGA
CAAAGTAATAATTCAACAACAACTTTGAAACCAAAAGAAACATCTCCAATTGTAACAACA
CAACCGGATGATCTTTTCAAAAAACTTGCTGCTCAACAGAAAAAGTCTCAATGGGAATGT
GATGCATGCATGACTAAGAATGATTTAGATAAGGAAAAATGCTTGTGCTGTGAAACTCCT
AAACCTGGTAATAAACCAGCTGCATCAACAAATTCATCACTTCTTTCTACAACTTCCTCA
TCTACTTTGGGATTTAAATTTGGAATGCCTTCTACAGTTGAAACAACTACTAAACCAATC
GCTAGTGATGATTTGTTCAAATCATTAGCTGCTCAACAGAAAAAGTCTCAATGGGAATGT
GATGCATGTATGACTAAGAATGATTTAGATAAAGAAAAATGTGTATGTTGTGAAACACCT
AAACCTGGCAGTTCAAGCACATCAAACAAATCTTTATCGTCAAGTTTTTCATTTGGAATT
AAACCAGCTGCCATCGAAACTAGTGCTAAATTTTCTTTCGGAATGCCTGCAACAACGACC
AGTAATAATACAACATCATCGCCTGATCCAGGATTTAAAAAAATTCTTGAAAAGCAAAAT
GCAAATTGGGAATGTTCTGCATGCATGACTCGTAATGAACAATCTCAATCAAAATGTATA
TGCTGTGAGCAAGTTAAGCCAGGATCTTCAGGAAATCAAGCTTCATTTTCGTTTGCTAGT
AAAAAAGTTTCATCAATAGTATCGCTTCCTACGCCATCAGAGGTAAAATTTTCATTTGGT
ATGCAATCAGCTCAAACTGATTCTTCTACAGTAGAGAAAAAGAATAATGACCAAGGTGAA
GTAAATAAAGAACAGAAGAAGGATGAAGTTGATAAACCAGTGAGTACGGGATTTTCTTTC
GGTTCATCACCTGCAGGATTTAAATTTGGTAGTAACACAAATACCACAGAAACTAAACCT
GCATATTCAGAATCGAATACAACTGCATCATTTACTTTCAAAGCACCAGCAAACAATATT
GCTAGTACTTCCTTCACTTTACCGGCACCTAAGGCTGAAGAAAATAAAGAATTGACTGAA
AATAAGGAAGAAAATAAACCTTTGAAAAGTTGTTTTGGGAGTTCGGTTCCTGAGGTTAAG
ACACAAGAGAAAAAAGTATCGTTTGATATTGACACAAATAAAGAAATCGCAAAATCTACA
GAGAGACCAGGTGGATTTTCTTTTTCACCATCAACTACATCAGTATCGACAAGTGTTGCT
TCTTCACTGTTTGGAAATGCAAGTACGACAATAGCAAGCTCTAATAATGGAATTACATTT
GGAATCCCTAGTTTAACAAAACCAGCAGAAGAAACAAAATCAACTGAAAACACTGCATCC
AAGCCATCTGTATCAGCAGGAGGTTTTCAATTTTTAGCATCATTACCAGTATCGAATACA
AGTTCTGCGGGATTCACTTTTGGCGCCAAAACTTCTGAAACATCAAGTACAACCACTTCA
ATACCATCAACACAAACTACAAATTTTTCTTTTGGAACTCCCAAAATTGCAAATAATGAT
GTTTCAAAAACAACAACTTTTGGAAGTATTGCAGCAACTTCAACTTCATCTACGACATTT
TCAACTTTTTCTCCAGCAATTGTATCTGCTCCAGCTCCTGTGTTCGGCTCGTCATCAACT
TTTGTTTTTGGCAATGCAAAGAAAGATGAAAATACAGTGCCAGCACAGTCCAGTGGAGGC
TTTTCATTCACAGCAAAATTACCCAGTTCAAATATGGTTTTTGGTAATCAAAATACTACA
CCTAGCATTACTCCTGTTTTTGGTTCTACAAATTCGATGCCTACTTTCGGTTCGAATATT
AACAGCACGCCATTAACAAACAATAATGAGAGTGCGTTTGGAAGTAAAATGAATAGTTTT
GGAAGCATTCAAACATCAACGCCAGCTTTAAATCAATCACAAAAACGTTCATTTGATTTT
GGCAATGCTGTTAGTGCACCAACAGAAGGTTCACAAAGTAAAAAGTTTGATTTCGGATCA
CAACAATCTCAAACTAATTCGGCACCATTCACATTTAATGCTCAACCGGAAACCAAACCT
GCATATAGTTTTTCAGCTGCTCCGGCATTCAATTTCACTGCTAATAGCAATACTGGCAAT
ATAAATGCTGGAAACAACACACAAGAAAATCTATTTCAATTTGGTGCCAACAATTCTTCT
ACGACACAGGGAATTTTTGCATTTGGAGGGAATACACAACAACCACCACAACAGCAACCA
ATTCAGCCAGTTTTACCAACACCTTCAATTATGAATTTTGGAGCAACGGTACCAAATGTT
GCAATTGGTGGTCTTACTGCTGCATTTAATCCTGGTACTGGAGGTGCAAGTCCACAACGC
AAAATATTAAGAGCAAATCGTCGAAATGTAACTCGCCGCTGA
>g10621.t1 Gene=g10621 Length=1433
MRKSADAIDEIKEIKNISGRRSIREGVDNYIYDETLLNRKKAINNNEDRSISEPPQSRYN
NHTVSDSVRLKTIREKMDDDNNQCSSDEDLSKSNSQLNGSDLDLEIPESASQTPTPTPLN
QLMGGNARRINSETNLNDSKRRLTGFMGNKSKRFCASTSELSFSSHLETNKSLFSPKNNR
GSRSGSLYGSNMSLNSSNNSRLFMVNSPFYNGKTTFGGASAYPRKDINQHKILRNPIQMR
PSSSLSNSSNTSTKSEGAAGYNMPESNAAKRILEIMTQFSGPLKETRNMGNNINSMMKIP
GLVQNRKRFGEEDLQLNRSIALSRPSAPYARSIGGTQTAAPPKNTPESIASSLLNTSSPS
PQIPTMSQLLKMKRLQNYTERAREIANRSENFLNQVHEYKLPSSNDDFESKRGGSTMENN
SSSSSLLKMKNNITKNLLRNDKTVFDQPPEPLNLPNIQLPELKSYPKFDIKLPVTTTESN
ANSYSKNKSIETPSMEMSTISSHNVNTNEKTSSLKSISTTNRDNFKFSMPIIFDSDSETV
DTSRIITNDKFIFSKPINIKEIENVNTTNVHFDIKSQQSTVKDDLFKNLVAKQNSQWECS
SCLSRNDNEKTKCLCCDTVRQSNNSTTTLKPKETSPIVTTQPDDLFKKLAAQQKKSQWEC
DACMTKNDLDKEKCLCCETPKPGNKPAASTNSSLLSTTSSSTLGFKFGMPSTVETTTKPI
ASDDLFKSLAAQQKKSQWECDACMTKNDLDKEKCVCCETPKPGSSSTSNKSLSSSFSFGI
KPAAIETSAKFSFGMPATTTSNNTTSSPDPGFKKILEKQNANWECSACMTRNEQSQSKCI
CCEQVKPGSSGNQASFSFASKKVSSIVSLPTPSEVKFSFGMQSAQTDSSTVEKKNNDQGE
VNKEQKKDEVDKPVSTGFSFGSSPAGFKFGSNTNTTETKPAYSESNTTASFTFKAPANNI
ASTSFTLPAPKAEENKELTENKEENKPLKSCFGSSVPEVKTQEKKVSFDIDTNKEIAKST
ERPGGFSFSPSTTSVSTSVASSLFGNASTTIASSNNGITFGIPSLTKPAEETKSTENTAS
KPSVSAGGFQFLASLPVSNTSSAGFTFGAKTSETSSTTTSIPSTQTTNFSFGTPKIANND
VSKTTTFGSIAATSTSSTTFSTFSPAIVSAPAPVFGSSSTFVFGNAKKDENTVPAQSSGG
FSFTAKLPSSNMVFGNQNTTPSITPVFGSTNSMPTFGSNINSTPLTNNNESAFGSKMNSF
GSIQTSTPALNQSQKRSFDFGNAVSAPTEGSQSKKFDFGSQQSQTNSAPFTFNAQPETKP
AYSFSAAPAFNFTANSNTGNINAGNNTQENLFQFGANNSSTTQGIFAFGGNTQQPPQQQP
IQPVLPTPSIMNFGATVPNVAIGGLTAAFNPGTGGASPQRKILRANRRNVTRR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g10621.t1 | Coils | Coil | Coil | 375 | 395 | - |
| 11 | g10621.t1 | Gene3D | G3DSA:4.10.1060.10 | Znf265 | 571 | 621 | 8.8E-9 |
| 12 | g10621.t1 | Gene3D | G3DSA:4.10.1060.10 | Znf265 | 623 | 683 | 8.9E-12 |
| 10 | g10621.t1 | Gene3D | G3DSA:4.10.1060.10 | Znf265 | 728 | 772 | 3.3E-12 |
| 13 | g10621.t1 | Gene3D | G3DSA:4.10.1060.10 | Znf265 | 794 | 848 | 3.0E-12 |
| 26 | g10621.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 234 | 260 | - |
| 24 | g10621.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 235 | 260 | - |
| 23 | g10621.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 403 | 424 | - |
| 25 | g10621.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 880 | 917 | - |
| 27 | g10621.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 893 | 913 | - |
| 4 | g10621.t1 | PANTHER | PTHR23193 | NUCLEAR PORE COMPLEX PROTEIN NUP | 81 | 808 | 8.2E-38 |
| 6 | g10621.t1 | PANTHER | PTHR23193:SF23 | NUCLEAR PORE COMPLEX PROTEIN NUP153 | 81 | 808 | 8.2E-38 |
| 3 | g10621.t1 | PANTHER | PTHR23193 | NUCLEAR PORE COMPLEX PROTEIN NUP | 817 | 1429 | 8.2E-38 |
| 5 | g10621.t1 | PANTHER | PTHR23193:SF23 | NUCLEAR PORE COMPLEX PROTEIN NUP153 | 817 | 1429 | 8.2E-38 |
| 1 | g10621.t1 | Pfam | PF00641 | Zn-finger in Ran binding protein and others | 657 | 683 | 7.9E-4 |
| 2 | g10621.t1 | Pfam | PF00641 | Zn-finger in Ran binding protein and others | 737 | 763 | 4.1E-4 |
| 15 | g10621.t1 | ProSitePatterns | PS01358 | Zinc finger RanBP2-type signature. | 597 | 616 | - |
| 16 | g10621.t1 | ProSitePatterns | PS01358 | Zinc finger RanBP2-type signature. | 658 | 677 | - |
| 18 | g10621.t1 | ProSitePatterns | PS01358 | Zinc finger RanBP2-type signature. | 738 | 757 | - |
| 17 | g10621.t1 | ProSitePatterns | PS01358 | Zinc finger RanBP2-type signature. | 823 | 842 | - |
| 28 | g10621.t1 | ProSiteProfiles | PS50199 | Zinc finger RanBP2 type profile. | 592 | 622 | 9.642 |
| 31 | g10621.t1 | ProSiteProfiles | PS50199 | Zinc finger RanBP2 type profile. | 654 | 683 | 10.105 |
| 29 | g10621.t1 | ProSiteProfiles | PS50199 | Zinc finger RanBP2 type profile. | 734 | 763 | 10.218 |
| 30 | g10621.t1 | ProSiteProfiles | PS50199 | Zinc finger RanBP2 type profile. | 818 | 848 | 9.744 |
| 19 | g10621.t1 | SMART | SM00547 | zf_4 | 595 | 619 | 0.048 |
| 21 | g10621.t1 | SMART | SM00547 | zf_4 | 656 | 680 | 3.2E-4 |
| 22 | g10621.t1 | SMART | SM00547 | zf_4 | 736 | 760 | 2.5E-4 |
| 20 | g10621.t1 | SMART | SM00547 | zf_4 | 821 | 845 | 0.0068 |
| 9 | g10621.t1 | SUPERFAMILY | SSF90209 | Ran binding protein zinc finger-like | 655 | 682 | 9.42E-7 |
| 8 | g10621.t1 | SUPERFAMILY | SSF90209 | Ran binding protein zinc finger-like | 735 | 762 | 5.49E-7 |
| 7 | g10621.t1 | SUPERFAMILY | SSF90209 | Ran binding protein zinc finger-like | 821 | 847 | 9.16E-6 |
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 transcript has been annotated with K14296 (nuclear pore complex protein Nup153)
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.
