General information for g2129.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear pore complex protein Nup214.
Parent gene
- The parent gene g2129 is located on chr_3: 15361002..15361992 (- 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 | g2129 | g2129.t1 | TTS | g2129.t1 | 15355971 | 15355971 |
| chr_3 | g2129 | g2129.t1 | isoform | g2129.t1 | 15356042 | 15361992 |
| chr_3 | g2129 | g2129.t1 | exon | g2129.t1.exon1 | 15356042 | 15357473 |
| chr_3 | g2129 | g2129.t1 | cds | g2129.t1.CDS1 | 15356042 | 15357473 |
| chr_3 | g2129 | g2129.t1 | exon | g2129.t1.exon2 | 15357530 | 15360317 |
| chr_3 | g2129 | g2129.t1 | cds | g2129.t1.CDS2 | 15357530 | 15360317 |
| chr_3 | g2129 | g2129.t1 | exon | g2129.t1.exon3 | 15361111 | 15361504 |
| chr_3 | g2129 | g2129.t1 | cds | g2129.t1.CDS3 | 15361111 | 15361504 |
| chr_3 | g2129 | g2129.t1 | exon | g2129.t1.exon4 | 15361562 | 15361891 |
| chr_3 | g2129 | g2129.t1 | cds | g2129.t1.CDS4 | 15361562 | 15361891 |
| chr_3 | g2129 | g2129.t1 | exon | g2129.t1.exon5 | 15361957 | 15361992 |
| chr_3 | g2129 | g2129.t1 | cds | g2129.t1.CDS5 | 15361957 | 15361992 |
| chr_3 | g2129 | g2129.t1 | TSS | g2129.t1 | 15362123 | 15362123 |
Sequences
>g2129.t1 Gene=g2129 Length=4980
ATGGCGCTCGCTGGACCGATTGGAAACGATAATTTGAACATCAGTTTTAGATTGCATAGC
AAAAATCAAGTATTTGATGGATCTTCTAATATACTTAATAATGCAAGAGTAAATTTAGTG
ACTTCAGCGAGCAGTTTTGGACTCGTTTTTGTTGGCTCTTCATTGCCTGAGATAATTGTT
TTGTGCATGAAAGATTTAGAATCGTCAAATGCCATTGAATCAAATGCGCCGGTACGAAAA
ATTCCTATGCCATCATCGGTAACTCAACTAGCATGTAATTGTGATGGATCTATTTTAGCA
GTGGATGTGAAAATCAACGGTATTTCTCACATTCAACTATATTCAGTGGCATCTTTTCTT
GCTCCTAGTGTGCAAAAAATACGAGAATTTCGTGTTTCGACAGACAATTCGAGTTCATCT
CAATTATGCTGGAATCCAGTTATTAATTCAGCACTTGCTGTTTGTTCTGAAAATGGAAGT
CTTGGATTATATGTATTAAAAGATCAAGGAGTTGAATTTCATTCAATCGATCCTTCTTTG
AAAGCAAAATGTTGCTGTTGGTCGCCAAAAGGTAAACAAATTGTTGCTGGTTTTGCTGAT
GGAAAACTTATGCAATTCAATATGGAAATGAAACCAGCAAGAACAATTGAATGTCCCCAA
GGAATAATAAATGGAAGTTTTGACACAATCGCCATTCAATGGTTTTCTACTTATCAGTTC
GCTGTCGCGTTTTTAAAACATGCAGAGGAATCAAGACCAGTTCTACATATTGTCAATGCG
CCCAAGGCAGGACCACTTCAATTTATTGCATACAATGATGTTTGTTATAGTACATCCGAA
GTTCGACCAAGTAAAATTTATCTTCAATACATTCAACAATGGAGTTTACTGTTAGTAGCT
TCTGCAAATTGCGTTGACATAAGTTTCCTTCGTATAACTAAACCTGGTGATATTCCTGAA
TGGACACAAGAATTTGCCAATGATCAATTTCCTGCTGAATTACCTTTGACACCTGAAAAA
GAAGAATCATTTCCTGTTGGTTTTGAATTGGATACAGCTTGCTCTGGTCGATTACTTCAA
GAAGATGGTAGTCAATATCCTGTAATGCCAATGATTCATTTACTATCAACTTATGGTGTG
TTGTGCTCATTCTATTTTGTTAATACAACACCAAATTATATCGATATTTGTTCACCCGCT
CGTCCGATCGATCCGCGAGCTCAAAGTTTCTTCACTACAAATATAATCAAACCATCGCAA
AATATAGCATCAAAAGAAGATCCAAAAACTCCACCAAAATCTATTTTATCGACACCTCTT
AGTCAATCAACACCGGCTGCAACTTTTGCAAAGAATAATCTCTTCAGTGGATTTGGCACA
AACACTCAAGCAGTTCCCAACACAAACATTTCTGCACCCTCAACTCAACAAAATGCCTTT
TCTGGATTTTCTTTGCCAACAACTATTCAACAGCAAACGCAACAACCACAACAGCAGCAA
CAACAACAAACTCAAAAACCAACAGAATCAATCAAATTGAATCAAGCACAACCGAATAAT
CAACCATTAATCACCATCCCGCCTACATATAATCCACCTGCAACACAAACTAAAACCGAT
TCTAAAGAGAATTCAAGTAATACACTAAAAATAAATGATAAGGAGGAAGAGCAAGTTTAT
GTTAAAATGATTCAAGATGAAATGAAAGCATTTGAGCTAGAATTAAGTTTTATAATGGAA
AAATCAAGAGCAGTGAAAGTAAATATTGGAACTAAAGAAGAATCTGCTGAAATGAGACGT
CAACTTGAAGAACTCGATGAATTAAAAAAGGAAGCAACTGAAACTGTAGATTCATTAAGG
ACTGATGTTCAAACAAATCGACTTGTATTGACTGAATTATTTTCAATGGCTTATGAAGCA
AAATCGAAATGTGATCAAGCAAAAGACGAAAAATCTTTAATTATGACTCCAACGCATGAT
CGTACAAGTAAGAGAACCCTTGAGAAATTGAAAAAAATGATTACAAATTGTGAGATGCAA
GTTCAAATATCAGTTCAGTTATTAAGCAGTCAATGGGCAAATTATCAAGAAACATTGAAT
AAAAACAAAAAGAATAAAATGCATATTCCAAGTCTTGAAGGAGTTTATCAAACATTAACT
AAACAACAAGAAATCATTTATAATTTAAATGGCAAGCTTAAGATGTTGAAAACAAAGTTG
GGAATTTATGACGATACAAAAAAGCAAAAGAATGCAAATGTTAATGCAACAATAGAATCT
CTTTCTGATTCTATTATTTCGATGTCACTTATTGATCAAGTACAAAATGAAAAATCTAAA
TTGACTGACAAAAAACTGAAAAATTTACGAAATTATTTGGAAAGTCGAGAAGTTGTAACA
ATTAAACCTCAAAGACCACAGTTGCCAGGATTGAATTCTGAGATAATAATTGAAAAGAAG
ATGAAAGCAATGAAGAGCATCAAAAAACCTGAACCGAAAAAGCAAGAAGTTAAAACTGCG
CCACCACCGTCTAAAAATGCTCAATTAGCAACTTCTAATCAATCTGTACAAAATATTCCA
GCACCAATTCAAACAGTTTCTAAAGCTCAACCAAGTGAATCAGTTTTTAATCTTTCACAA
AAAGCTTCACCATTTACTGCTATGCCAAACACAAGTGCAGCGAATGCTCCAATTCAATTG
TCATTTGGTAAAAAATCTGATGAGCAATCGAAATCATTCTCTTTTGGTCAAACAACATCT
ACAACACAGCCTTTTGCTCTCAATTTGAGTGGATCTGCGGGATCGAGTATACCACAACCA
TCTTTCGGATTTTCAACTACAGATAAAAAGAAAGAAGAAATAGCATTGCCTAAAGTTCAA
ACTACACAAAAAGCTCCAGAAGTAAAAACACCATCAACAATTTCAAATGCAAATGTTAGC
GTTAGTGCAAATTTCTCTTTGTCTCTGCCATCAAAAACTACTCTAGTTGCTCCAAAGGAA
ACACAAAAGGTTGAAGAGAAGAAACCAGAAGAAATTAAAACATCTTTGCCTACAACAAAT
GAGTCTACGACTTTTACATTTTCATTATCAGGAAAGAAGGATACTTCAAATAAACCATCA
GCTCAAGCAACTGCAATTTCGTTTGGACCAAATACTTCAAATGTTTCTGACACTATCAAG
AATGCATTTTCTTTTGGTGCTACTCAATCACCTTCAGCGACTGCTTTTAGTTTCTCAAAC
TTTGGAAAAACAGATGTTAAAGCATCAAGTGTAACTTCTTCATCAGCACCATCAATTTCG
TTTGGAAATACAACAAGTGCACCATTTAGTGGATTTTCAGTAAGCACTAGTGAATCAAAC
AAACCTGTTGCTTCTACTGCCAATATATTTGGTTCTGCTTTATCGACTTCGAAACCTGTT
GAAGAAAACAAAAATTCAGTTCCTGCTACAAAAAGCACAGTTTCTTCAAGTATCGTAACA
ACAGCATGTTCAACAGGATTTTCTTTTGCTACATTAACTGGAAATCCGACTGATTCTAAG
TCATTACCATTTTCCTTTGCAAGTTTCGGTTCTTCAATAACATCTGCAGCTCCTTCACTC
TCACCAACAGTTACAACACAATCAACAAATATTTTTGGAGCAAAACCTGCAAATGTAGCT
ACTACAAGTTTAACTTCTTCATTTGCATCATCAGTTCCTATAATTTCTTCAGCTGTATCA
AGCACTTCTACAACTGATTCAGTCCTTTCGGGTTTAAAGATTTGCTCTCCAGAAGTATCA
AAACCACAAGTAACTCAAGTTGCAACGACAAGTCCATTTGGATCGAGTAATGTTTTAACT
CAACAAACAATACAGAGTCCAAATCAATCAATCTTTGGAAGTAGTTTAATAAAACCTACT
ACACCATCAACATCTTTGTCTTCACCAACTTCTCAATCAGCTGTAACAATAACAACAGTT
CAATCGAGTACTCCATCATCAATATTTGGCTCTCAAACAACAACTCAAGCTAGTTCTATT
TTTGGATCATTATCTCTTGATGCAAATAAAACTCAAAGTCCTACAACCGCCTCAGTTACA
TCTCCTTCATCAAATATTTTCGGAAGTACTCTCGTAAAACCTGATCAATCAGTTTTTGGA
CAGTCTGCTACAACTTCAGCAACTGGCTTTGGAAACATATTCAGTAACGCTGCTTCAACT
ACGAGTCCAACTCAGCAAACTGCAGCTTCTGGTTTCGGAAGTATTTTTGGTGGAAGCCAA
GCATCAAATACAAGCAATTCTAATATATTTGGAGCAGCATCACCTTCACCATCTACAAAT
ATTTTTGCACAAGCAAATCAAACACAACAACCATCGAGTGGTTCAATATTCGGTCAAGTG
TCGACTGCTAACACTAGTGGATCATTATTCTCGCAAAGCTCCTTTTCTTCGCCCTCAACG
GGTTCAAATATTTTTGGAGGCGGCAGTTCAACAACACAAACACAGTCACCTTTTGGTTCA
ACAAGCATTTTCGGATCGAGCAACACACAACAACCAAGTTCTTCAATTTTTGGTGGTAGT
TCATTTGGCAGTCAACCATCATCAAATATTTTTGGAGCAAGTTCCACTACTTCAGCTCAA
ACTGGAAATATTTTTGGATCTTCTAATATTTTTGCTCAACAAAGCCCTCAAAATCAAACT
CAGCCAACATTTGGTGGTAATGCTACATTTTCAAATACATTTGGTTCAAGTTCTATTTTT
GGACAACAACAAAATCAACCTATTTTTGGTGGTACAGCTACTTTTGGAGGTCCTAAAACA
AATATTTTTGCTGCATCATCACCACAACAAACTGGATCAGGTCAAACTGGAAATATTTTT
GAAAAACTTGGTTCACAGCAGTCAGGAGGAGGTCTTTTTGGAGGTTTATCTTCTCAACAG
CAGCAACCTCAACAACAACAGTCTGGATTTTCAGGAAGCGCATTCTCTAGTTGGCGTTAA
>g2129.t1 Gene=g2129 Length=1659
MALAGPIGNDNLNISFRLHSKNQVFDGSSNILNNARVNLVTSASSFGLVFVGSSLPEIIV
LCMKDLESSNAIESNAPVRKIPMPSSVTQLACNCDGSILAVDVKINGISHIQLYSVASFL
APSVQKIREFRVSTDNSSSSQLCWNPVINSALAVCSENGSLGLYVLKDQGVEFHSIDPSL
KAKCCCWSPKGKQIVAGFADGKLMQFNMEMKPARTIECPQGIINGSFDTIAIQWFSTYQF
AVAFLKHAEESRPVLHIVNAPKAGPLQFIAYNDVCYSTSEVRPSKIYLQYIQQWSLLLVA
SANCVDISFLRITKPGDIPEWTQEFANDQFPAELPLTPEKEESFPVGFELDTACSGRLLQ
EDGSQYPVMPMIHLLSTYGVLCSFYFVNTTPNYIDICSPARPIDPRAQSFFTTNIIKPSQ
NIASKEDPKTPPKSILSTPLSQSTPAATFAKNNLFSGFGTNTQAVPNTNISAPSTQQNAF
SGFSLPTTIQQQTQQPQQQQQQQTQKPTESIKLNQAQPNNQPLITIPPTYNPPATQTKTD
SKENSSNTLKINDKEEEQVYVKMIQDEMKAFELELSFIMEKSRAVKVNIGTKEESAEMRR
QLEELDELKKEATETVDSLRTDVQTNRLVLTELFSMAYEAKSKCDQAKDEKSLIMTPTHD
RTSKRTLEKLKKMITNCEMQVQISVQLLSSQWANYQETLNKNKKNKMHIPSLEGVYQTLT
KQQEIIYNLNGKLKMLKTKLGIYDDTKKQKNANVNATIESLSDSIISMSLIDQVQNEKSK
LTDKKLKNLRNYLESREVVTIKPQRPQLPGLNSEIIIEKKMKAMKSIKKPEPKKQEVKTA
PPPSKNAQLATSNQSVQNIPAPIQTVSKAQPSESVFNLSQKASPFTAMPNTSAANAPIQL
SFGKKSDEQSKSFSFGQTTSTTQPFALNLSGSAGSSIPQPSFGFSTTDKKKEEIALPKVQ
TTQKAPEVKTPSTISNANVSVSANFSLSLPSKTTLVAPKETQKVEEKKPEEIKTSLPTTN
ESTTFTFSLSGKKDTSNKPSAQATAISFGPNTSNVSDTIKNAFSFGATQSPSATAFSFSN
FGKTDVKASSVTSSSAPSISFGNTTSAPFSGFSVSTSESNKPVASTANIFGSALSTSKPV
EENKNSVPATKSTVSSSIVTTACSTGFSFATLTGNPTDSKSLPFSFASFGSSITSAAPSL
SPTVTTQSTNIFGAKPANVATTSLTSSFASSVPIISSAVSSTSTTDSVLSGLKICSPEVS
KPQVTQVATTSPFGSSNVLTQQTIQSPNQSIFGSSLIKPTTPSTSLSSPTSQSAVTITTV
QSSTPSSIFGSQTTTQASSIFGSLSLDANKTQSPTTASVTSPSSNIFGSTLVKPDQSVFG
QSATTSATGFGNIFSNAASTTSPTQQTAASGFGSIFGGSQASNTSNSNIFGAASPSPSTN
IFAQANQTQQPSSGSIFGQVSTANTSGSLFSQSSFSSPSTGSNIFGGGSSTTQTQSPFGS
TSIFGSSNTQQPSSSIFGGSSFGSQPSSNIFGASSTTSAQTGNIFGSSNIFAQQSPQNQT
QPTFGGNATFSNTFGSSSIFGQQQNQPIFGGTATFGGPKTNIFAASSPQQTGSGQTGNIF
EKLGSQQSGGGLFGGLSSQQQQPQQQQSGFSGSAFSSWR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g2129.t1 | Coils | Coil | Coil | 588 | 622 | - |
| 17 | g2129.t1 | Gene3D | G3DSA:2.130.10.10 | - | 59 | 273 | 6.7E-9 |
| 13 | g2129.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 418 | 442 | - |
| 16 | g2129.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 488 | 509 | - |
| 15 | g2129.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 825 | 851 | - |
| 12 | g2129.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 997 | 1019 | - |
| 14 | g2129.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 999 | 1014 | - |
| 11 | g2129.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1630 | 1659 | - |
| 6 | g2129.t1 | PANTHER | PTHR23193:SF40 | LD43047P-RELATED | 275 | 1176 | 1.7E-43 |
| 7 | g2129.t1 | PANTHER | PTHR23193 | NUCLEAR PORE COMPLEX PROTEIN NUP | 275 | 1176 | 1.7E-43 |
| 3 | g2129.t1 | Pfam | PF13634 | Nucleoporin FG repeat region | 883 | 934 | 14.0 |
| 2 | g2129.t1 | Pfam | PF13634 | Nucleoporin FG repeat region | 1205 | 1301 | 92.0 |
| 5 | g2129.t1 | Pfam | PF13634 | Nucleoporin FG repeat region | 1321 | 1413 | 6.3E-4 |
| 4 | g2129.t1 | Pfam | PF13634 | Nucleoporin FG repeat region | 1462 | 1546 | 1.7E-5 |
| 1 | g2129.t1 | Pfam | PF13634 | Nucleoporin FG repeat region | 1578 | 1653 | 3.5 |
| 9 | g2129.t1 | SMART | SM00320 | WD40_4 | 123 | 165 | 46.0 |
| 10 | g2129.t1 | SMART | SM00320 | WD40_4 | 169 | 207 | 0.49 |
| 8 | g2129.t1 | SUPERFAMILY | SSF117289 | Nucleoporin domain | 14 | 388 | 2.25E-37 |
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 K14317 (nuclear pore complex protein Nup214)
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.
