Gene loci information

Transcript annotation

  • This transcript has been annotated as NSFL1 cofactor p47.

Parent gene

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_2 g8101 g8101.t2 isoform g8101.t2 28571016 28572154
chr_2 g8101 g8101.t2 exon g8101.t2.exon1 28571016 28572154
chr_2 g8101 g8101.t2 TTS g8101.t2 28571026 28571026
chr_2 g8101 g8101.t2 cds g8101.t2.CDS1 28571091 28572017
chr_2 g8101 g8101.t2 TSS g8101.t2 28572415 28572415

Sequences

>g8101.t2 Gene=g8101 Length=1139
ATGAAAATGGACCGGATCAAGGTGTAAATGTCGATCAAGCAATAATTGACTCAAATAGTT
CTGATGAAGAAGAAAATATCAAGGTGGCAACCAAAAAAGAAAATAAAAGTTCAACCGGTT
TCAGCAATATTGCGACTATGTCATCAGTAAGGAATCAAGAAGATAAAGATGACGAAAAAG
GGCAAGCGTACTATGCTGGTGGATCTGAGCATTCAGGTCAACAAGTTCTCGGTCCACCAC
GTAAAAATCCAATAAAAGATGTGATCTCTCAAGTTTTTCAAAAAGCTCAATCGGGTAATA
TAGAGCAATTCGATCCTGATGATGATGATGATGATGACGAATCTCCAAATTCACGTCCTA
CATTTAGTGGAACTGGTTATCGTTTAGGGCACACTGACAATGACACTCAAACTGTTGCAT
CATCTTCATCTAGTGGTCGTAAAAAACATGAGCATGACACAGTAACTGTAAAAGTTTATA
GTCAAGGCTTCACAGTCGATGATGGTGATTTGCGTTCTTATGAAGAACCTCAAAATAGAG
AATTTTTTGAGAGTATCACTCGAAATGAAATTCCAGCTGAATTGAGAAAGCAGGGTAAAT
CTATGGTTCATGTAAATGTGGAAAATCATATGGGTGAGGAATATGTTAAAAAAGCACCGA
AATTTAAGGCTTTTACTGGTTCAGGTCATACACTTGGTTCACCAACTCCTCTCACTACTG
AAGACGCAACAGTACCAAATGTAACAACTAGCAGTGATGGAAAGTTATCTGCAAACAAAC
AAGAGAATGAAGCAAAAGCATCTTCAGAATTGAATGTTGATCAAAATCAGCCGACTACAA
TGATTTCAATTCGTTTAGCGGATGGTAGTCGTATTTCATCTCGTTTCAATTTGACACACA
CCGTTCAAGATATTCGTCAATATATTATAACGGCACGTCCCGAATATTCTGGTCGATCAT
TCATGTTACTTACAACTTTTCCAAATAAGGAACTTGCAAATTCAAGCGACTCAATTCAAC
AAGCTGGTTTACAAAATGCTGCAATCATGCAACGAATGAAGTAAAATAGTATACTTTTGT
ACTTTGCTTAATATGTGTAATAATAAAATCAACAGTTTTGTTATAAATGAATTTTTAAT

>g8101.t2 Gene=g8101 Length=308
MSSVRNQEDKDDEKGQAYYAGGSEHSGQQVLGPPRKNPIKDVISQVFQKAQSGNIEQFDP
DDDDDDDESPNSRPTFSGTGYRLGHTDNDTQTVASSSSSGRKKHEHDTVTVKVYSQGFTV
DDGDLRSYEEPQNREFFESITRNEIPAELRKQGKSMVHVNVENHMGEEYVKKAPKFKAFT
GSGHTLGSPTPLTTEDATVPNVTTSSDGKLSANKQENEAKASSELNVDQNQPTTMISIRL
ADGSRISSRFNLTHTVQDIRQYIITARPEYSGRSFMLLTTFPNKELANSSDSIQQAGLQN
AAIMQRMK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g8101.t2 CDD cd01770 UBX_UBXN2 236 306 6.82421E-31
8 g8101.t2 Gene3D G3DSA:3.30.420.210 - 106 168 7.9E-21
7 g8101.t2 Gene3D G3DSA:3.10.20.90 - 170 308 3.7E-43
12 g8101.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 107 -
16 g8101.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 18 -
15 g8101.t2 MobiDBLite mobidb-lite consensus disorder prediction 72 98 -
14 g8101.t2 MobiDBLite mobidb-lite consensus disorder prediction 181 226 -
13 g8101.t2 MobiDBLite mobidb-lite consensus disorder prediction 183 226 -
3 g8101.t2 PANTHER PTHR23333:SF20 GH01724P 6 307 2.7E-82
4 g8101.t2 PANTHER PTHR23333 UBX DOMAIN CONTAINING PROTEIN 6 307 2.7E-82
1 g8101.t2 Pfam PF08059 SEP domain 111 184 1.2E-21
2 g8101.t2 Pfam PF00789 UBX domain 230 305 5.4E-16
17 g8101.t2 ProSiteProfiles PS51399 SEP domain profile. 106 170 29.226
18 g8101.t2 ProSiteProfiles PS50033 UBX domain profile. 229 306 19.881
10 g8101.t2 SMART SM00553 faf_3 103 196 6.4E-29
11 g8101.t2 SMART SM00166 ubx_3 228 307 2.3E-6
6 g8101.t2 SUPERFAMILY SSF102848 NSFL1 (p97 ATPase) cofactor p47, SEP domain 100 191 1.31E-27
5 g8101.t2 SUPERFAMILY SSF54236 Ubiquitin-like 179 306 2.72E-27

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

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.

Raw TPM values