Gene loci information

Transcript annotation

  • This transcript has been annotated as Lethal(2)neighbour of tid protein.

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 g7474 g7474.t3 TTS g7474.t3 23913962 23913962
chr_2 g7474 g7474.t3 isoform g7474.t3 23914019 23915614
chr_2 g7474 g7474.t3 exon g7474.t3.exon1 23914019 23915259
chr_2 g7474 g7474.t3 cds g7474.t3.CDS1 23914019 23915259
chr_2 g7474 g7474.t3 exon g7474.t3.exon2 23915362 23915614
chr_2 g7474 g7474.t3 cds g7474.t3.CDS2 23915362 23915614
chr_2 g7474 g7474.t3 TSS g7474.t3 23915689 23915689

Sequences

>g7474.t3 Gene=g7474 Length=1494
ATGGCACCAAAAAATAAAAAGTCTGAAAAGAAGGGGTTGCTGCAGACATTTTACACAAAA
TATTTTACAATAGATTTTGCCAAATCACTTATATTTAATCCAGCTCAATTATCTCTTTTG
ACTTATTTTATTTTGACTGTTGAGTTGGCTCTAAATATATTTATTGTCTTTAGAGTAAGA
TATACTGAGATTGATTGGATTGCTTATATGCAAGAATGTGAAGGATTTATAAATGGAACA
TTAGATTATGCTCGCGATACTGGGCCACTCGTGTATCCAAGTTTCTTCGTTTACATTTAT
TCATTGCTTTATTTTATTACATCTCGAGGAAGTAACATAAGATTAGCGCAATTCATTTTT
ATTGCAATTTATTTGCTGCAACTTTGGCTTGTTCTTCGCCTCTACTCAAAAACTAGAAAA
GTTCCTCCATATATCATCATCATCAGCATTTTTACATCATATCGCATTCATTCTATTTAT
TCACTGAGACTTTTCAATGATCCTGTGGCGATTTTATTTCTTTATATTGCACTCAATCTC
TTTATGGATCGAAAATGGAGTTCAGGAAGTGTGATTTTTAGTTTGGCTGTGGGAATTAAA
ATGAATATTTTACTGTTTGCGCCTGCAATTTTAATGCTATATCTCGCATGCTTGGGATTT
TTAAGAACAATTTATCAGCTCTCCATTTGTGCTTCTGTCCAATTGCTCATTGGTGCACCT
TTTTTGTTGACTCATCCGATCTCATATATCAAAGGAAGTTTCGATTTAGGTCGTGTTTTT
GAGCACAAATGGACTGTAAATTATAGATTTTTAGACCGTGAAACATTTGAAAATTCGACG
TTTCACGTTGCTCTTTTGATTTTGCATCTTGTACTGCTTGTAGTTGTCACTAAACCATGC
TATCTTTTCTTCAAAAACTATGCACGCTTAAGAACTTTACAAGCTCAATTTGAGCCTCAA
ATTGCTGCTGAAAACAGAGAAATAGAACAGGAGATTCAACAAAAAATGAAAAAATTGAAG
AAGAAAGTTAATGATAAAGAAGAACAGTTATCAACAGAACAAAAAAATTTCTTGAAATCT
TTTGAAAAAGGATTGAAAAATCAATTTGGTGAACAAAATCAACCAAAACCTGAGCCAAAG
GATGAAGATGATCCGAAAAAAGTTGAAATACATTTTGATCAATGTGTTCAATTGGCAATT
TTACCAATTTTCCTTATCAACTTTATTGGAATCGTTTGTGCAAGATCACTTCATTATCAA
TTTTATGTATGGTATTTTCATTCATTGCCATATCTCTCATGGTTCACAGACTATCATACA
AGTTTCAAAATTCTTATCCTATTTTTGATCGAATTTTGCTGGAATCAATATCCTTCAACA
GTCTTTTCAAGTGTTTTATTGCATGCATGTCATACAATTTTATTATTTGGAGTTATTCGA
AAAATTTATAAAGAAGTTGCAATGGCTAAGCAAGCATCAAGCAAACAAAAATGA

>g7474.t3 Gene=g7474 Length=497
MAPKNKKSEKKGLLQTFYTKYFTIDFAKSLIFNPAQLSLLTYFILTVELALNIFIVFRVR
YTEIDWIAYMQECEGFINGTLDYARDTGPLVYPSFFVYIYSLLYFITSRGSNIRLAQFIF
IAIYLLQLWLVLRLYSKTRKVPPYIIIISIFTSYRIHSIYSLRLFNDPVAILFLYIALNL
FMDRKWSSGSVIFSLAVGIKMNILLFAPAILMLYLACLGFLRTIYQLSICASVQLLIGAP
FLLTHPISYIKGSFDLGRVFEHKWTVNYRFLDRETFENSTFHVALLILHLVLLVVVTKPC
YLFFKNYARLRTLQAQFEPQIAAENREIEQEIQQKMKKLKKKVNDKEEQLSTEQKNFLKS
FEKGLKNQFGEQNQPKPEPKDEDDPKKVEIHFDQCVQLAILPIFLINFIGIVCARSLHYQ
FYVWYFHSLPYLSWFTDYHTSFKILILFLIEFCWNQYPSTVFSSVLLHACHTILLFGVIR
KIYKEVAMAKQASSKQK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g7474.t3 Coils Coil Coil 322 356 -
2 g7474.t3 PANTHER PTHR12646 NOT56 - RELATED 24 494 5.9E-141
1 g7474.t3 Pfam PF05208 ALG3 protein 43 464 1.0E-136
15 g7474.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 36 -
26 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 37 57 -
24 g7474.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 58 89 -
28 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 106 -
17 g7474.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 107 117 -
31 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 118 135 -
20 g7474.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 136 140 -
25 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 141 157 -
14 g7474.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 158 163 -
34 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 164 181 -
21 g7474.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 182 192 -
32 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 193 217 -
18 g7474.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 218 223 -
29 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 224 243 -
22 g7474.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 244 280 -
35 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 281 304 -
16 g7474.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 305 394 -
27 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 395 418 -
23 g7474.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 419 437 -
30 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 438 454 -
13 g7474.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 455 460 -
33 g7474.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 461 479 -
19 g7474.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 480 497 -
11 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 35 57 -
6 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 108 -
5 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 113 135 -
4 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 156 178 -
3 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 193 215 -
7 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 228 250 -
8 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 282 304 -
9 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 396 418 -
10 g7474.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 457 479 -

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:0000030 mannosyltransferase 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. There were no conditions that were differentially expressed