Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein lozenge.

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_2 g4247 g4247.t1 TSS g4247.t1 616408 616408
chr_2 g4247 g4247.t1 isoform g4247.t1 616845 623213
chr_2 g4247 g4247.t1 exon g4247.t1.exon1 616845 617268
chr_2 g4247 g4247.t1 cds g4247.t1.CDS1 616845 617268
chr_2 g4247 g4247.t1 exon g4247.t1.exon2 618794 618907
chr_2 g4247 g4247.t1 cds g4247.t1.CDS2 618794 618907
chr_2 g4247 g4247.t1 exon g4247.t1.exon3 620388 620588
chr_2 g4247 g4247.t1 cds g4247.t1.CDS3 620388 620588
chr_2 g4247 g4247.t1 exon g4247.t1.exon4 622600 623213
chr_2 g4247 g4247.t1 cds g4247.t1.CDS4 622600 623213
chr_2 g4247 g4247.t1 TTS g4247.t1 623389 623389

Sequences

>g4247.t1 Gene=g4247 Length=1353
ATGAAGGCAGAGCCTCAAACACAGTGTACTACTAAAACTAAAATTGAAATGTTGGTTGAG
GACAATCATTCAAATACAACCAACAGTAGCAGTGCTTCACCACCAAAATCACAAACTCAA
AATGATTACTGGTGGACGGAAAGAATGGTTTTGCGGGCACAAGAAGAGTTTCCTGGTGAA
TTGGTTCGCACGGGAAGTCCATATTTTTTATGTTCTGCACTTCCCACTCATTGGCGATCA
AACAAAACTCTTCCTGTTGCCTTCAAAGTTGTAGCATTAGGTGATGTCCATGATGGAACA
TTGGTTTCGATTAGAGCTGGAAACGATGAAAATTTTCATGGTGAATTAAGAAATTCAACT
GCAACGATGAAAAATCAAGTTGCAAAATTTAATGATCTTCGATTTGTTGGCAGAAGTGGT
AGAGGTAAAAGCTTTACTTTAACAATAACAGTCTCTACTAATCCTCCACAAGTTGCGACG
TACATTAAAGCAATAAAAGTAACAGTTGATGGGCCTAGAGAACCGAGAAGTAAAAATGCA
ACATCACCTGGAAGCCATCAATTGAGGACACTCAGTTTCAATCAACGTCTACTAGAAACG
ACACCATATCTGAGAGATCTCGAGCCATTTCGTAGAAAATCTTTATCTCAATTAAACAAT
AATTCATCGAATCAAATCTCAAATACAAATGTTCCTACTACAGATTATGCATATAAACCG
AATGCACCGCAAATTCAAGAATCGAACTTGATGGGAGCGGCTGAATGGACAGGATATTCG
TCACCAACTGTCACTTCATCATATTCAACATCATTTCAGCCAACATCATATGATCAATCA
AGTATGTTGCCGGCAGTTCTTCCTAATGATGCTTATAATCCTTCCGATTATCATTATGGA
TCGAGTGTCACTCAAAATGCTTATGGTTCTACATCACTTACACCATGGTCAAATGAAGTT
GATCAATATAATTACAATTACAATTCTTATCAATATTCATGTCAGCCAGTATCAACAGTT
CAGACTCAATATCCACCACCACCTCCTCCACCACCTCAATCATCACAGACAACAATGGTT
CTTTATCCGCAACTTTATTCAACAGTCAATCAAAATCAAATTCATCTGCATCTTCATGGT
AGTGAGAAACTTGTAGAGCAATATCTTGGCAGTGCTGTAAGCACATCAATGCAACCAGAC
AACAATTCATATTCATTGAATCAAAATTCAAGAACAATTGGTAGCGGTCTAGAACTTCCT
ATGTTGTCACAAACTGAAGAATTAAAACATCAAGAACAAACAGTTGATCAAGATGTTGCT
GATCCAAATGTTTGGCGACCACACTTGATGTAA

>g4247.t1 Gene=g4247 Length=450
MKAEPQTQCTTKTKIEMLVEDNHSNTTNSSSASPPKSQTQNDYWWTERMVLRAQEEFPGE
LVRTGSPYFLCSALPTHWRSNKTLPVAFKVVALGDVHDGTLVSIRAGNDENFHGELRNST
ATMKNQVAKFNDLRFVGRSGRGKSFTLTITVSTNPPQVATYIKAIKVTVDGPREPRSKNA
TSPGSHQLRTLSFNQRLLETTPYLRDLEPFRRKSLSQLNNNSSNQISNTNVPTTDYAYKP
NAPQIQESNLMGAAEWTGYSSPTVTSSYSTSFQPTSYDQSSMLPAVLPNDAYNPSDYHYG
SSVTQNAYGSTSLTPWSNEVDQYNYNYNSYQYSCQPVSTVQTQYPPPPPPPPQSSQTTMV
LYPQLYSTVNQNQIHLHLHGSEKLVEQYLGSAVSTSMQPDNNSYSLNQNSRTIGSGLELP
MLSQTEELKHQEQTVDQDVADPNVWRPHLM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g4247.t1 Gene3D G3DSA:2.60.40.720 - 47 187 5.1E-71
14 g4247.t1 MobiDBLite mobidb-lite consensus disorder prediction 428 450 -
2 g4247.t1 PANTHER PTHR11950 RUNT RELATED 22 208 2.6E-104
4 g4247.t1 PANTHER PTHR11950:SF46 PROTEIN LOZENGE 22 208 2.6E-104
3 g4247.t1 PANTHER PTHR11950 RUNT RELATED 302 388 2.6E-104
5 g4247.t1 PANTHER PTHR11950:SF46 PROTEIN LOZENGE 302 388 2.6E-104
7 g4247.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 48 67 2.9E-67
10 g4247.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 67 88 2.9E-67
12 g4247.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 89 108 2.9E-67
8 g4247.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 109 130 2.9E-67
9 g4247.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 131 152 2.9E-67
11 g4247.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 153 175 2.9E-67
6 g4247.t1 PRINTS PR00967 Acute myeloid leukemia 1 protein signature 341 360 2.9E-67
1 g4247.t1 Pfam PF00853 Runt domain 53 178 9.0E-68
16 g4247.t1 ProSiteProfiles PS51062 Runt domain profile. 49 177 67.283
13 g4247.t1 SUPERFAMILY SSF49417 p53-like transcription factors 52 177 1.79E-62

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 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