Gene loci information

Transcript annotation

  • This transcript has been annotated as Segmentation protein Runt.

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 g13227 g13227.t1 TSS g13227.t1 28676813 28676813
chr_1 g13227 g13227.t1 isoform g13227.t1 28677226 28680842
chr_1 g13227 g13227.t1 exon g13227.t1.exon1 28677226 28677730
chr_1 g13227 g13227.t1 cds g13227.t1.CDS1 28677226 28677730
chr_1 g13227 g13227.t1 exon g13227.t1.exon2 28678238 28678378
chr_1 g13227 g13227.t1 cds g13227.t1.CDS2 28678238 28678378
chr_1 g13227 g13227.t1 exon g13227.t1.exon3 28680079 28680842
chr_1 g13227 g13227.t1 cds g13227.t1.CDS3 28680079 28680842
chr_1 g13227 g13227.t1 TTS g13227.t1 NA NA

Sequences

>g13227.t1 Gene=g13227 Length=1410
ATGCATCTGCCAAATAGTGAAGGATCGACGGCGGTTGCATCGCCTGCAACGCCAGAAGCA
TCAAAATCGCCTGAACAAATTGGCACATCGATTATGAATGATATGTATCAAAATCTTCAT
GAATTACTGCAAGAATATCATGGTGAATTAGTAACAACCGGATCGCCTTCAATCTTATGC
AGTGCTCTACCAACACATTGGCGATCAAATAAAAGTCTTCCATGTGCCTTCAAAGTTGTA
GCTCTCGATGACATTCCAGATGGAACAATGGTGCAAATTTTTGCTGGCAATGATGAAAAT
TATTGTGGTGAATTAAGAAATGCAACAGCAGTGATGAAAAATCAAGTTGCAAAATTTAAT
GATTTGAGATTTGTTGGAAGAAGTGGAAGAGGAAAATCTTTTACACTTACCATTACAATT
CGTTCATATCCAAGTCAAGTTGCCATGTATTCAAAAGCTATTAAAGTTACCGTCGATGGA
CCAAGAGAACCAAGATCTAAACAAAATTATGCATATGGACATCCTGGAGGTTTTAATCCA
TTCATGCTCAATCCCGGATGGTTGGATGCAGCATATATGAATTATGCTTGGACAGATTAC
TTCAGACATCAACATCAACCGCATCATCCCGCACTAGCGGCCAAAGGTTCACCGACTCTA
CCAGCAGCAGCAAATGGTGCGACAGTTTTACCAAATGGTTCAACACCAGAAACAGCATTC
TTTCCATCCCTGCCTAGTCCGCCAGTGAGTGTTGCTTCAACATCAGCGCCACCACCATCA
GTTACAAGTCCAGTCACACAACAAACCTCAACAATAATTCCACCACCAACTTCAGTCTAT
CTTCCACCATTTCCATTCGCTGCACATCCTGATCTTCTTCATAAATCGCCATTCATGCCT
TATAATGCACTTAGAGCTGGACTTCCAACACATCAACTTGTATCGGGCACAACGCAAACA
TTAAATGAAAATTCAAATGGAAATGTTGGTCGATTATCACCTGCATCATCAAGAAATTCA
ACCTCAAGTCCACCCTCAAATAGTCAATCAACACCAAATCACAAAATAAATTCTTCAATT
GAATTTAACTCAACAAATGACCATTCATCACAATCATCATCAGACGACTCGGAAGATGAA
CATATTGATGTTGTAAAGTCAGCATTTGTGCCAATTTTAAGACCAACAATAACTGCAACC
ATCACCACAACCACAACACCCGATTCAACAGTCAAAGAGCAATCGCCATCAAGGGAAATT
CCAATTAAAATTAAATGTGAACTCAAAGCACCTTCGTCGAAGAAATTAAGTCTTCATGAG
AAAGCAACCGAGGGACCGCGATCACCTGACACAAAAATAAAATCACCCACAATTACACAA
CAGCACAAAACCGTTTGGCGACCTTATTAG

>g13227.t1 Gene=g13227 Length=469
MHLPNSEGSTAVASPATPEASKSPEQIGTSIMNDMYQNLHELLQEYHGELVTTGSPSILC
SALPTHWRSNKSLPCAFKVVALDDIPDGTMVQIFAGNDENYCGELRNATAVMKNQVAKFN
DLRFVGRSGRGKSFTLTITIRSYPSQVAMYSKAIKVTVDGPREPRSKQNYAYGHPGGFNP
FMLNPGWLDAAYMNYAWTDYFRHQHQPHHPALAAKGSPTLPAAANGATVLPNGSTPETAF
FPSLPSPPVSVASTSAPPPSVTSPVTQQTSTIIPPPTSVYLPPFPFAAHPDLLHKSPFMP
YNALRAGLPTHQLVSGTTQTLNENSNGNVGRLSPASSRNSTSSPPSNSQSTPNHKINSSI
EFNSTNDHSSQSSSDDSEDEHIDVVKSAFVPILRPTITATITTTTTPDSTVKEQSPSREI
PIKIKCELKAPSSKKLSLHEKATEGPRSPDTKIKSPTITQQHKTVWRPY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g13227.t1 Gene3D G3DSA:2.60.40.720 - 36 173 1.0E-69
15 g13227.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 24 -
14 g13227.t1 MobiDBLite mobidb-lite consensus disorder prediction 251 270 -
11 g13227.t1 MobiDBLite mobidb-lite consensus disorder prediction 320 353 -
12 g13227.t1 MobiDBLite mobidb-lite consensus disorder prediction 431 469 -
16 g13227.t1 MobiDBLite mobidb-lite consensus disorder prediction 431 448 -
13 g13227.t1 MobiDBLite mobidb-lite consensus disorder prediction 450 469 -
2 g13227.t1 PANTHER PTHR11950:SF31 SEGMENTATION PROTEIN RUNT 22 469 1.3E-116
3 g13227.t1 PANTHER PTHR11950 RUNT RELATED 22 469 1.3E-116
9 g13227.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 37 56 2.6E-60
8 g13227.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 56 77 2.6E-60
7 g13227.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 78 97 2.6E-60
5 g13227.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 98 119 2.6E-60
4 g13227.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 120 141 2.6E-60
6 g13227.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 142 164 2.6E-60
1 g13227.t1 Pfam PF00853 Runt domain 40 167 8.4E-69
18 g13227.t1 ProSiteProfiles PS51062 Runt domain profile. 38 166 67.362
10 g13227.t1 SUPERFAMILY SSF49417 p53-like transcription factors 41 166 1.29E-60

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:0003677 DNA binding MF
GO:0005524 ATP binding MF
GO:0006355 regulation of transcription, DNA-templated BP
GO:0003700 DNA-binding transcription factor activity MF

KEGG

Orthology

Pathway

This gene does not belong to any 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