Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Longitudinals lacking protein, isoforms A/B/D/L.

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_3 g382 g382.t1 isoform g382.t1 3087787 3094850
chr_3 g382 g382.t1 exon g382.t1.exon1 3087787 3087923
chr_3 g382 g382.t1 cds g382.t1.CDS1 3087787 3087923
chr_3 g382 g382.t1 exon g382.t1.exon2 3087998 3088004
chr_3 g382 g382.t1 cds g382.t1.CDS2 3087998 3088004
chr_3 g382 g382.t1 exon g382.t1.exon3 3088110 3088939
chr_3 g382 g382.t1 cds g382.t1.CDS3 3088110 3088939
chr_3 g382 g382.t1 exon g382.t1.exon4 3092184 3092660
chr_3 g382 g382.t1 cds g382.t1.CDS4 3092184 3092660
chr_3 g382 g382.t1 exon g382.t1.exon5 3094214 3094403
chr_3 g382 g382.t1 cds g382.t1.CDS5 3094214 3094403
chr_3 g382 g382.t1 exon g382.t1.exon6 3094484 3094594
chr_3 g382 g382.t1 cds g382.t1.CDS6 3094484 3094594
chr_3 g382 g382.t1 exon g382.t1.exon7 3094659 3094850
chr_3 g382 g382.t1 cds g382.t1.CDS7 3094659 3094850
chr_3 g382 g382.t1 TSS g382.t1 NA NA
chr_3 g382 g382.t1 TTS g382.t1 NA NA

Sequences

>g382.t1 Gene=g382 Length=1944
ATGCTTCAATTAATGCAACAACAACAGCAGCAGCAACAGCAAGGAAATGTGACGAGACAA
TCAGCGCTCACATATTCTTCTTATGCGGGTGGCAGTGGTAGTGACGATAAAGCCAAAGCC
AGCTTTTACAAATGTCGAAAGTGTGGAAAATTCTATAAGACCAAGTACAGCTGGCGAAGG
CATGAAAAGAAGGAATGTGGCGTTGCACCGCAATTTCACTGCGATAAATGCGAATTCAAG
ACGAAATATCGTCATAATTTAACATCGCATCAGAAAATTCGTCATCAAATGGAAATTTGC
AATAGTCAAAAGAAGAAGCAACAGGTTGATTTTGCTGCCACTGCCACCGCCACAACGGAT
GGCATTTCAATCACTGCAATTAGAAATAATATTCAGCAACAAAGCACTTCCACTTATTCG
CAAGCACACTCGCTGCTACTCGCTCCTAGTGTTCTCGATCTTAATTCCAAAAATAATAAC
AATAACTTTAAAACAGCCGAGGATCTTAGCAATATAAAGATCACAAAAATAGCCGGACTA
ACATGGGAACAGTGGAACGAACGACTAGCAATGCCATTAGTGACAACCTTACGTGAAGGA
CCGCATCCATTGGTCTTTCCACGTGATCTCTGCGTCAGTACAATGAAAACAGAGAGCAAT
CGACGATCGCCATCAAGTGAAATATCAAACAACGGTGCCGGTGCAAGCAATGCAAACAGC
AATTCATCATCAAATGCCACTGGCAATGGTGCAGCAGCAGCAGCAGGCGGTGAAGGTGGC
TTTGCGTGTCCCGATTGTGGCCGTATGTATAAACTAAAATCCTCATTGCGAAATCATCAA
AAGTGGGAGTGCGGTAAAGAACCGCAATTTCAATGCCCGTATTGTGTGTATAGAGCTAAG
CAGAAAATGCATATCGGTCGTCATATGGAGCGCATGCATAAAGAAAAATTTTTTAAAATT
GAAGGCGATGGTGATGGTGCTTGCGATACTAACACAGCAATTAATTTAGACAAATACTTT
TATTTCCCCGAAAATAACAGTGAATTTTCACAAAATAATTTTAAGATTGCACTTCCTACT
CCTCCTCCCATCCTCCAAAAAACGCTACAACAATCACAGCAAGAACAATGGCTCGATTAT
ACATCAGTTCAAAGTTCAATCTCAAGTGGTGGAAGTGGTAATAATGGTCTTGATATTAGT
GACTTAGATCTGCCACCATTAACTGAAATTAAACAAGAAAAAATTGATGATGATTATGAG
CCAGTACAAGACATTCCAGTCTGGCATACAGCAAAATCTACAGCTAAAATTACAATGTAT
CCAACCAAAGAGAATATAAAGACCACAGTTAGACGCAAGTTACAACAGATTCAACCTAAA
CCGCCAATTTTAACGCCACATGTTATGCCACCATTAACTCAGATCAAAACTCATACACCG
AAATTGATTGCAGTTGCAGTAAAGAAAATTGTGCCGATTCAGCCAAAGCCTTCAGAGCTT
CCGCAGCTGACACAAATACAGACACCAAGCACTGTGAAGTCTCTGTCGCTTCAGTCGTCA
CCAACTTCTATTGGTTCATCACCAACAAAACTGATAATAAAGAAAGTTTCTCACATCCCT
GTGAATGCTCGTCGCCATTCTACTGGAAATAGCTCGAAAATTGTGCCAACTAAAGAATTA
CTTGAGAGTCTCAAACAGGAGAACATTATTTATCAAGATAATGAAGATAAACCGTGGTAT
TGTAAGACTTGTGGAAGAAATTATAAATGGAGAAATAGTTTGAAACAACACATTAAAAAT
GAATGCGGAGTTCCACCAAAATATCATTGCATTCGAAAATGTGGCTACAAAACTCACATA
CATTCCAATCTAAAACGTCACTTAAATTCAAAATTCTGCAAACCAGCTGATGATAAGAAT
AATGACGAAGAAAATCAAACCTAA

>g382.t1 Gene=g382 Length=647
MLQLMQQQQQQQQQGNVTRQSALTYSSYAGGSGSDDKAKASFYKCRKCGKFYKTKYSWRR
HEKKECGVAPQFHCDKCEFKTKYRHNLTSHQKIRHQMEICNSQKKKQQVDFAATATATTD
GISITAIRNNIQQQSTSTYSQAHSLLLAPSVLDLNSKNNNNNFKTAEDLSNIKITKIAGL
TWEQWNERLAMPLVTTLREGPHPLVFPRDLCVSTMKTESNRRSPSSEISNNGAGASNANS
NSSSNATGNGAAAAAGGEGGFACPDCGRMYKLKSSLRNHQKWECGKEPQFQCPYCVYRAK
QKMHIGRHMERMHKEKFFKIEGDGDGACDTNTAINLDKYFYFPENNSEFSQNNFKIALPT
PPPILQKTLQQSQQEQWLDYTSVQSSISSGGSGNNGLDISDLDLPPLTEIKQEKIDDDYE
PVQDIPVWHTAKSTAKITMYPTKENIKTTVRRKLQQIQPKPPILTPHVMPPLTQIKTHTP
KLIAVAVKKIVPIQPKPSELPQLTQIQTPSTVKSLSLQSSPTSIGSSPTKLIIKKVSHIP
VNARRHSTGNSSKIVPTKELLESLKQENIIYQDNEDKPWYCKTCGRNYKWRNSLKQHIKN
ECGVPPKYHCIRKCGYKTHIHSNLKRHLNSKFCKPADDKNNDEENQT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g382.t1 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 41 118 1.7E-7
11 g382.t1 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 234 316 7.2E-12
13 g382.t1 Gene3D G3DSA:3.30.160.60 Classic Zinc Finger 557 631 2.9E-7
10 g382.t1 MobiDBLite mobidb-lite consensus disorder prediction 216 242 -
2 g382.t1 PANTHER PTHR24388 ZINC FINGER PROTEIN 9 628 1.1E-26
1 g382.t1 Pfam PF00096 Zinc finger, C2H2 type 261 281 0.0016
16 g382.t1 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 43 70 9.889
14 g382.t1 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 261 288 11.78
15 g382.t1 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 579 606 9.785
9 g382.t1 SMART SM00355 c2h2final6 43 63 22.0
6 g382.t1 SMART SM00355 c2h2final6 72 95 1.1
5 g382.t1 SMART SM00355 c2h2final6 261 281 19.0
8 g382.t1 SMART SM00355 c2h2final6 290 313 0.36
7 g382.t1 SMART SM00355 c2h2final6 579 599 40.0
3 g382.t1 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 42 93 8.24E-5
4 g382.t1 SUPERFAMILY SSF57667 beta-beta-alpha zinc fingers 257 308 8.52E-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 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