Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Myoneurin.

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_4 g17273 g17273.t1 isoform g17273.t1 13002876 13004517
chr_4 g17273 g17273.t1 exon g17273.t1.exon1 13002876 13003073
chr_4 g17273 g17273.t1 cds g17273.t1.CDS1 13002876 13003073
chr_4 g17273 g17273.t1 exon g17273.t1.exon2 13003459 13004178
chr_4 g17273 g17273.t1 cds g17273.t1.CDS2 13003459 13004178
chr_4 g17273 g17273.t1 exon g17273.t1.exon3 13004371 13004517
chr_4 g17273 g17273.t1 cds g17273.t1.CDS3 13004371 13004517
chr_4 g17273 g17273.t1 TSS g17273.t1 NA NA
chr_4 g17273 g17273.t1 TTS g17273.t1 NA NA

Sequences

>g17273.t1 Gene=g17273 Length=1065
ATGAACTTACAAGAAAATTTCAATGACAATTTAATTGATCATCTCAATCGATGTCGTTTT
TGTTTAAGAAGTTTTGACCAAAATGAGAAAATAGTTGAACTTGATGAAAATATTCAAATA
CAATTTTATGAATTGACACAAATTGAGCTCAACATTTCACTAGATTTATCATCAGCAATT
TGCCTAATTTGCCACAACAATCTTTTACTTTTTTCATCATTCCGTACTGAACTTATTGAA
AAGCAATCAAAACTTTTAAATCACATTCAAAATTTGAAGGAAAATCAAAACTTTCAAATT
AAAAAAGAAATTATAGAAGATTTTACAGAAGTTCAATTAGAAAATACAAAAATATGTGAA
GATACGAAAAAGTCAATTGAAAAACTAGAACAAAATTATTTAAATTTTATTTGCGATCTT
TGTAACTTTTCATGTGCTCATAAACACAAATTAGAAACTCACATGGCAAAAAACCATAAA
AAAGTTTTTACTTGTGAAATTTGCGATCAAAAATTCTTTAAAAAATTCCAACTCAATGCT
CACATGAAAGCAAAACATACAGAAAAAATTCGCAATCATTTTTGTCCAATTTGTAACAAA
GCATTTTTCTCAGCTGAAAATTTAAAAAAACACGTCGAATCACACAATGACAAAGACATG
CCATGTGAATTTTGTGGAAAATTATTTTCATGTATCAACAATTTAAGAACTCATCTTTAT
TATCATTCTGAGCCTAAATTTGTTTGTGAAATTGACAATTGTGGAAAGAAATTTTTTATG
AAAAAAAGATTGAGGGCGCATATTAAGACACATAAAAATCAGAAGGATTTTGTTTGTGGA
TTTTGTGACAAAAGTTATTTTTCTCAGAACGATTTAAACCGTCACATTTCATCAATTCAT
CAAAAACTAAGATTTTTCTGCGAAATCCCTGGATGCAATGGAAATTTTTCAAGACGTGAA
TATTACAAAAAATATGCACTGACTCATCATCAAAATTTAGGATCAGAAAAATTAGAAAAT
TTATTACAAAAAATCAAAGATGCAATTCCATCCCAAAAGAGCTGA

>g17273.t1 Gene=g17273 Length=354
MNLQENFNDNLIDHLNRCRFCLRSFDQNEKIVELDENIQIQFYELTQIELNISLDLSSAI
CLICHNNLLLFSSFRTELIEKQSKLLNHIQNLKENQNFQIKKEIIEDFTEVQLENTKICE
DTKKSIEKLEQNYLNFICDLCNFSCAHKHKLETHMAKNHKKVFTCEICDQKFFKKFQLNA
HMKAKHTEKIRNHFCPICNKAFFSAENLKKHVESHNDKDMPCEFCGKLFSCINNLRTHLY
YHSEPKFVCEIDNCGKKFFMKKRLRAHIKTHKNQKDFVCGFCDKSYFSQNDLNRHISSIH
QKLRFFCEIPGCNGNFSRREYYKKYALTHHQNLGSEKLENLLQKIKDAIPSQKS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g17273.t1 Coils Coil Coil 75 95 -
16 g17273.t1 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 105 190 5.8E-9
17 g17273.t1 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 191 216 2.7E-5
15 g17273.t1 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 217 271 1.1E-10
14 g17273.t1 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 272 340 1.9E-8
6 g17273.t1 PANTHER PTHR24408 ZINC FINGER PROTEIN 17 273 2.4E-37
8 g17273.t1 PANTHER PTHR24408:SF38 RE23320P-RELATED 17 273 2.4E-37
5 g17273.t1 PANTHER PTHR24408 ZINC FINGER PROTEIN 214 332 2.4E-37
7 g17273.t1 PANTHER PTHR24408:SF38 RE23320P-RELATED 214 332 2.4E-37
1 g17273.t1 Pfam PF07776 Zinc-finger associated domain (zf-AD) 18 86 3.3E-7
2 g17273.t1 Pfam PF05605 Drought induced 19 protein (Di19), zinc-binding 163 214 2.4E-6
4 g17273.t1 Pfam PF00096 Zinc finger, C2H2 type 247 271 0.0086
3 g17273.t1 Pfam PF00096 Zinc finger, C2H2 type 277 300 2.3E-4
23 g17273.t1 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 165 186 -
19 g17273.t1 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 195 215 -
22 g17273.t1 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 222 242 -
21 g17273.t1 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 249 271 -
20 g17273.t1 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 279 300 -
32 g17273.t1 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 163 191 10.388
34 g17273.t1 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 193 220 10.596
35 g17273.t1 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 220 247 10.845
33 g17273.t1 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 247 276 12.674
36 g17273.t1 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 277 305 9.868
24 g17273.t1 SMART SM00868 zf_AD_2 17 88 6.3E-4
30 g17273.t1 SMART SM00355 c2h2final6 136 159 0.093
29 g17273.t1 SMART SM00355 c2h2final6 163 186 0.0011
26 g17273.t1 SMART SM00355 c2h2final6 193 215 0.0013
31 g17273.t1 SMART SM00355 c2h2final6 220 242 2.0
28 g17273.t1 SMART SM00355 c2h2final6 247 271 0.0034
25 g17273.t1 SMART SM00355 c2h2final6 277 300 0.0027
27 g17273.t1 SMART SM00355 c2h2final6 305 329 130.0
9 g17273.t1 SUPERFAMILY SSF57716 Glucocorticoid receptor-like (DNA-binding domain) 17 87 6.41E-6
11 g17273.t1 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 159 203 4.71E-6
13 g17273.t1 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 191 242 8.17E-10
12 g17273.t1 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 229 286 7.21E-11
10 g17273.t1 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 275 329 6.5E-6

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:0005634 nucleus CC
GO:0008270 zinc ion binding MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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