Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g1307 g1307.t1 isoform g1307.t1 9497840 9499131
chr_3 g1307 g1307.t1 exon g1307.t1.exon1 9497840 9498714
chr_3 g1307 g1307.t1 cds g1307.t1.CDS1 9497840 9498714
chr_3 g1307 g1307.t1 exon g1307.t1.exon2 9498780 9499131
chr_3 g1307 g1307.t1 cds g1307.t1.CDS2 9498780 9499131
chr_3 g1307 g1307.t1 TSS g1307.t1 NA NA
chr_3 g1307 g1307.t1 TTS g1307.t1 NA NA

Sequences

>g1307.t1 Gene=g1307 Length=1227
ATGTCATGCCGAGGCAAATTTATTTATCCATTTATTGTCGATTGCCTTGAATTGAGACAC
GATAAAAAATATGGACGTTTTACAATAACAAATCGTGATCTTAAAGCTGGCGATATTTTA
GCAATTGAAGAACCTTTTTTTAAATTTCTCAAAGTTGATCCAGAAGATAGAGAATATCCT
GAAACAAATTTCTACAATTATTGTGTAAATTGCCTTTTAGATAACTATCTCGATTTAACT
CCCTGTCCCGAATGTAATCAAACAATGTTTTGTTCTGAAAAGTGTCGTGAGGATGCTTTC
AATTTATTTCATAAATACGAATGCAATATACTCAATGTTTTACCCGAAACTGGAAACTTT
CAAATGGCAATTCGAAACTTTTTTGTTTCTTTATCAATTTGCAATGGATCAATTACTGAA
TTAAAAGAATTAATGCGAAAAAGTGATGAAAGAAATCCAACTATATTTGATTTCAATTTA
AGTGATAAAAAATGCATGAACAATTCTAAGAACTATCTTATGAGCATGATTTCCCTTGCG
CATCAAACGACAGTCACAGTGAAAGAATTTGGTTATATTTTTCAACATCATGCACATTTA
AGAAAGCTATGGGAGACTGAAAAAGAATTCATTATGAAATACATTGAAAGAATGATGCAA
ATTGAAATTTTAAATTTTCATGGCATCAAGGGACGATCATTAGACGCAAAAGATCCATAT
CGAAGATGCGTTGGTGATGGAAGTTTTGCATTTTGTTCACTATTGAATCATTCTTGTTGT
CCAAATGTTATGCGAATTGTTGTTGATGGTAAAATGGTTGTGATTGTAGAACGACCTATA
AAAGCTGGTGAGCAGCTGTTTGACTGTTACATTGGCGACAGTTTTTATTTCAAAGCAAAA
AATTATCGTCGTAAAGAACTAGTTGACTACAATTTTCTTTGTGAATGTCTAGCATGTGAA
AATGAATTTCCTGACATACTTTCTGGATTGCTCGACATAAAGGACATGCAGACACTTCAA
ATGGTACAAAAATGGTACAGAGAACTTCAAGATCCGAGAAAAGAGCTTACAATAGAAAAT
GCTAAACAGCTGGCTTTAAAATACTCGACTATTTTGAATCAAAATTACAAAGAAGATAAT
TATCCATGTAAAGAAATTGTTTTGTTGCAGTTGTGCATTGTAAAGTGCTTTTTAACTGCT
GCTAGGAGTTATGTGACATTTCCATGA

>g1307.t1 Gene=g1307 Length=408
MSCRGKFIYPFIVDCLELRHDKKYGRFTITNRDLKAGDILAIEEPFFKFLKVDPEDREYP
ETNFYNYCVNCLLDNYLDLTPCPECNQTMFCSEKCREDAFNLFHKYECNILNVLPETGNF
QMAIRNFFVSLSICNGSITELKELMRKSDERNPTIFDFNLSDKKCMNNSKNYLMSMISLA
HQTTVTVKEFGYIFQHHAHLRKLWETEKEFIMKYIERMMQIEILNFHGIKGRSLDAKDPY
RRCVGDGSFAFCSLLNHSCCPNVMRIVVDGKMVVIVERPIKAGEQLFDCYIGDSFYFKAK
NYRRKELVDYNFLCECLACENEFPDILSGLLDIKDMQTLQMVQKWYRELQDPRKELTIEN
AKQLALKYSTILNQNYKEDNYPCKEIVLLQLCIVKCFLTAARSYVTFP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1307.t1 Gene3D G3DSA:2.170.270.10 SET domain 29 319 2.1E-28
8 g1307.t1 Gene3D G3DSA:3.30.60.180 - 67 123 2.1E-28
7 g1307.t1 Gene3D G3DSA:3.30.70.3410 - 124 233 2.1E-28
3 g1307.t1 PANTHER PTHR47111 BCDNA.LD29892 9 400 1.2E-57
2 g1307.t1 Pfam PF00856 SET domain 27 290 1.8E-11
1 g1307.t1 Pfam PF01753 MYND finger 68 108 4.4E-5
6 g1307.t1 ProSitePatterns PS01360 Zinc finger MYND-type signature. 68 108 -
11 g1307.t1 ProSiteProfiles PS50280 SET domain profile. 14 291 10.216
10 g1307.t1 ProSiteProfiles PS50865 Zinc finger MYND-type profile. 68 108 8.725
4 g1307.t1 SUPERFAMILY SSF82199 SET domain 12 316 4.58E-19
5 g1307.t1 SUPERFAMILY SSF144232 HIT/MYND zinc finger-like 62 111 2.96E-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. There were no conditions that were differentially expressed