Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Heterogeneous nuclear ribonucleoprotein U-like protein 1.

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_1 g9164 g9164.t1 isoform g9164.t1 560942 565251
chr_1 g9164 g9164.t1 exon g9164.t1.exon1 560942 561064
chr_1 g9164 g9164.t1 cds g9164.t1.CDS1 560942 561064
chr_1 g9164 g9164.t1 exon g9164.t1.exon2 561232 561335
chr_1 g9164 g9164.t1 cds g9164.t1.CDS2 561232 561335
chr_1 g9164 g9164.t1 exon g9164.t1.exon3 561610 561843
chr_1 g9164 g9164.t1 cds g9164.t1.CDS3 561610 561843
chr_1 g9164 g9164.t1 exon g9164.t1.exon4 561997 563715
chr_1 g9164 g9164.t1 cds g9164.t1.CDS4 561997 563715
chr_1 g9164 g9164.t1 exon g9164.t1.exon5 564122 564670
chr_1 g9164 g9164.t1 cds g9164.t1.CDS5 564122 564670
chr_1 g9164 g9164.t1 exon g9164.t1.exon6 565054 565116
chr_1 g9164 g9164.t1 cds g9164.t1.CDS6 565054 565116
chr_1 g9164 g9164.t1 exon g9164.t1.exon7 565197 565251
chr_1 g9164 g9164.t1 cds g9164.t1.CDS7 565197 565251
chr_1 g9164 g9164.t1 TSS g9164.t1 565365 565365
chr_1 g9164 g9164.t1 TTS g9164.t1 NA NA

Sequences

>g9164.t1 Gene=g9164 Length=2847
ATGAAAGTAATTGAGTTGCGTGCAGAATTGCAGGCACGCGGCTTAGACACAAAAGGTGTA
AAAGCGGCATTAATCGATCGACTAAAGGAAGCATTGGATCTTGAAGAGCAGCAAGCAGGT
GGTGCACCAAGACCAGCAACAACTGTTACTTCAACAGCACCAGACACTCCAAGAACATTA
AGAAGAAGTTCACGATCAAGAACTCGATCGCCTGAACCTGTTGCAAATGCACCGATTGCT
CAAGACACACCATTACCGGCTGTAGCTGAAGAACCAGAAGAACAAAAAGATTCTGAGCAA
GATTTAGAGCAAATTATTGATGAAACAGATACTGATAAACATCAACAACAAGATTATGAT
GAAGATGCATTGCTTGAAGATGAAAATGAAGACAGTGAACAACAACAACAACAATCAGAA
TCACAAGAGCAACAACAACAGTCAGAAACAGCTGATGAACAAATGGACACAACAGAAAAT
ACTGGCGGCAATAATACAGATGGAGGAACAGAGGATGAAAATCGTGGCATTAAAAGACGA
TCTGATTCACCATCGAAAGGCAATTCACCGAAAAAACGTCAACGATTACCACCACCTAAT
ATTGATGACTTTGTAAATGATGAGGATGAACCTGAATTGGATGAAAATAAAATTCAACTT
TCATGGTTCGATTCCGATCTCAATCTAAAAATTGATCGTGAAACATTTTGCTCAGCTGTT
TCACTTTCTGATACAGGCCTCGCTCTTGTTTGGGCAGGAGCGCGTGCAAACTATGGCGCA
ATAAACAATGGCAAATATTTCTATGAAGTTCAATTGCTCGCACAAAATACAAAAATCAGT
TATCCAAATGAACGTAATTTACATGAAATTCGTTGTGGTTGGTCCATGTCAAATTCACCA
CTTCAACTTGGCGAGACTGAGCTTTCATTTGGTCTTGATTCATCAGGTCGTAAATGTTGC
AATGCAGAATTCACTGATTATGGTGTAAAAATTAATGTACTTGATGTTATTGGTGTGCAT
TTAGATTTAAATGATGAAAAATGCACAATTCAATATACAATTAATGGAAAAGATCAAGGA
ATTGCATTTGAATTTGAAAAAAGTGCATTAAATGATCAAGCATTATTTCCACATATTGTT
ACAAAAAATATTGAATATAAAGTCAACTTTGGTCAATGTGAATCATCATTATGGAGTGCA
CGACGTGACGCACATAAGGAAAGTGAAATACAAAGACGTCGTAAAGATTTAGAACGTAAA
AAGAAAGAAGTGGAGCGAAAAAGAGAAGAAAAGTTGAAAAAGCAACAAGAGGCAGCAGCA
GCAGAAGCGGCAAAAGCAGCAGAAAATACAGAAGCAAGTGAAGAAAAGCCAGCTGAAGAG
CAACAACAACAAACTCAAGAACAGCCAGCAGAAGCCCCAGTTGAAGAAGAAGAGCCAGAA
CCAGTGTTACCTGATGACATCGATGAGTCAGAAGTTGATGCTGATACACCACATGAAAAT
TGCTTACCTGGTTATAATTACATCAATCGTACTTCAGTCGATCAACTCACAAAAGGTCCA
CGACGTCCCGATGCACGAACTGATTGTGAAGTAATTATGATGATTGGATTGCCTGGTGCT
GGTAAATCACATTGGGCACTTGAAAGAGCCAAAGAATTTCCTGAAAAACGCTACACTTTA
TTGGGTACAAAATATTTACTTGAAAAAATGCGAATCAATGGACAACCAAGAAAGCCAAAT
AGTGGTCCAGGACGTTGGGAAAAACTCATTGAATTGTGCAATCGTGGACTTTTGACACTA
AATGAAATTGCTTGCAAACGTCGTCGTAATTTTATTCTTGATCAACCTCATGTTTATATC
AGTGATCAACGTCGTAAAATGCGTGTTTATGGTGATTTTAAAAGAATTGCAGCAATTGTT
GTTCCAAATGAAGAAGAGTACAAGAAACGTATTAAACAACGATTAGAAACTGAAGGCAAA
GATATTCCTGATTCAGCTGTCAATGAAATGCGTGCAAATATTACATTGCCAGAACTAGAA
TATCAATGGTTCAATGAAATTCTTTATACTGACTTAGAAAAAGAACAAGCAACTGAAGAA
GTCAGCAAAGAAAATGAACGTGGCAAAAAAGCACTAAATCAACGTAATCGACAAAATAAT
TTCCGTGGCGGACGTGATTTTAATAATCGTAATGATAGAAGATGGGGTGGTGGTGGAAAT
AATCGCAATGATTTTAGACGTAATGATCGTTGGGGTCCACCAAATCAACAGCAACGAAAT
ATGGGTGGAAACTTTAGACGCGATTTTGATTTTAATGGTGGTCGTGGTAGAAATAATTGG
AATGGACCTGATAATTGGATGAATCGTCCTCGAGGTGGATATGGTGGAGCACCACCACCA
CGACCTGGTCAAAAAGGACCAGGAAGACAGCAAGACAACAACAACAGAAATAGAAATGAT
CGCAGAGATTTCCGTCAAGGAAGTGGAGGAAATAATAATCGCAATAATAATCGTCGTCCT
GATGGAAATAAGAAATTTGGTGGAAAAAATGACTGGAATTCACAAGGTGGTCCATGGAGT
GGAAATAATTGGGGAAACAATTTTGGTGGTGGAAATCAAACATGGGGCAACAATCAGTGG
AATCAAAATCAATATGGTGGTACTAATTCAAGTACAGATAATTCCAGCAATGATACGAAT
CAGCAATGGATGGCTTATTATCAGCAGCAACAACAACAACAACAGCAACAAGTTAGTCAA
AGTTGGTACAGCGATCAAAATTACGGCGGTGCATTTTCATCAAATTCCAATTATAATAGC
AGTAGTAACCAACAGACGAAGCAATAA

>g9164.t1 Gene=g9164 Length=948
MKVIELRAELQARGLDTKGVKAALIDRLKEALDLEEQQAGGAPRPATTVTSTAPDTPRTL
RRSSRSRTRSPEPVANAPIAQDTPLPAVAEEPEEQKDSEQDLEQIIDETDTDKHQQQDYD
EDALLEDENEDSEQQQQQSESQEQQQQSETADEQMDTTENTGGNNTDGGTEDENRGIKRR
SDSPSKGNSPKKRQRLPPPNIDDFVNDEDEPELDENKIQLSWFDSDLNLKIDRETFCSAV
SLSDTGLALVWAGARANYGAINNGKYFYEVQLLAQNTKISYPNERNLHEIRCGWSMSNSP
LQLGETELSFGLDSSGRKCCNAEFTDYGVKINVLDVIGVHLDLNDEKCTIQYTINGKDQG
IAFEFEKSALNDQALFPHIVTKNIEYKVNFGQCESSLWSARRDAHKESEIQRRRKDLERK
KKEVERKREEKLKKQQEAAAAEAAKAAENTEASEEKPAEEQQQQTQEQPAEAPVEEEEPE
PVLPDDIDESEVDADTPHENCLPGYNYINRTSVDQLTKGPRRPDARTDCEVIMMIGLPGA
GKSHWALERAKEFPEKRYTLLGTKYLLEKMRINGQPRKPNSGPGRWEKLIELCNRGLLTL
NEIACKRRRNFILDQPHVYISDQRRKMRVYGDFKRIAAIVVPNEEEYKKRIKQRLETEGK
DIPDSAVNEMRANITLPELEYQWFNEILYTDLEKEQATEEVSKENERGKKALNQRNRQNN
FRGGRDFNNRNDRRWGGGGNNRNDFRRNDRWGPPNQQQRNMGGNFRRDFDFNGGRGRNNW
NGPDNWMNRPRGGYGGAPPPRPGQKGPGRQQDNNNRNRNDRRDFRQGSGGNNNRNNNRRP
DGNKKFGGKNDWNSQGGPWSGNNWGNNFGGGNQTWGNNQWNQNQYGGTNSSTDNSSNDTN
QQWMAYYQQQQQQQQQQVSQSWYSDQNYGGAFSSNSNYNSSSNQQTKQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g9164.t1 CDD cd12884 SPRY_hnRNP 220 394 4.0242E-72
11 g9164.t1 Coils Coil Coil 125 161 -
13 g9164.t1 Coils Coil Coil 407 453 -
12 g9164.t1 Coils Coil Coil 694 714 -
9 g9164.t1 Gene3D G3DSA:1.10.720.30 - 1 47 2.5E-12
10 g9164.t1 Gene3D G3DSA:2.60.120.920 - 214 438 1.7E-42
8 g9164.t1 Gene3D G3DSA:3.40.50.300 - 526 705 1.6E-19
24 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 35 201 -
25 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 43 59 -
20 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 135 170 -
18 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 171 189 -
21 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 401 438 -
22 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 401 482 -
19 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 699 713 -
27 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 699 765 -
17 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 726 749 -
26 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 799 851 -
23 g9164.t1 MobiDBLite mobidb-lite consensus disorder prediction 907 948 -
4 g9164.t1 PANTHER PTHR12381 HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN U FAMILY MEMBER 1 403 2.1E-166
3 g9164.t1 PANTHER PTHR12381 HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN U FAMILY MEMBER 503 935 2.1E-166
2 g9164.t1 Pfam PF02037 SAP domain 1 32 1.3E-11
1 g9164.t1 Pfam PF13671 AAA domain 531 677 1.9E-21
28 g9164.t1 ProSiteProfiles PS50800 SAP motif profile. 1 32 11.984
29 g9164.t1 ProSiteProfiles PS50188 B30.2/SPRY domain profile. 183 395 9.744
16 g9164.t1 SMART SM00513 sap_9 1 32 5.8E-9
15 g9164.t1 SMART SM00449 SPRY_3 263 394 1.7E-14
7 g9164.t1 SUPERFAMILY SSF68906 SAP domain 1 35 4.12E-8
5 g9164.t1 SUPERFAMILY SSF49899 Concanavalin A-like lectins/glucanases 225 392 2.85E-18
6 g9164.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 527 705 1.46E-9

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