Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Balbiani ring protein 3.

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 g12506 g12506.t6 isoform g12506.t6 24091912 24094576
chr_1 g12506 g12506.t6 exon g12506.t6.exon1 24091912 24092421
chr_1 g12506 g12506.t6 cds g12506.t6.CDS1 24091913 24092421
chr_1 g12506 g12506.t6 exon g12506.t6.exon2 24092717 24092860
chr_1 g12506 g12506.t6 cds g12506.t6.CDS2 24092717 24092860
chr_1 g12506 g12506.t6 exon g12506.t6.exon3 24093276 24093337
chr_1 g12506 g12506.t6 cds g12506.t6.CDS3 24093276 24093337
chr_1 g12506 g12506.t6 exon g12506.t6.exon4 24093409 24093457
chr_1 g12506 g12506.t6 cds g12506.t6.CDS4 24093409 24093457
chr_1 g12506 g12506.t6 exon g12506.t6.exon5 24093695 24093844
chr_1 g12506 g12506.t6 cds g12506.t6.CDS5 24093695 24093844
chr_1 g12506 g12506.t6 exon g12506.t6.exon6 24093970 24094055
chr_1 g12506 g12506.t6 cds g12506.t6.CDS6 24093970 24094055
chr_1 g12506 g12506.t6 exon g12506.t6.exon7 24094112 24094247
chr_1 g12506 g12506.t6 cds g12506.t6.CDS7 24094112 24094247
chr_1 g12506 g12506.t6 exon g12506.t6.exon8 24094305 24094466
chr_1 g12506 g12506.t6 cds g12506.t6.CDS8 24094305 24094466
chr_1 g12506 g12506.t6 exon g12506.t6.exon9 24094537 24094576
chr_1 g12506 g12506.t6 cds g12506.t6.CDS9 24094537 24094576
chr_1 g12506 g12506.t6 TSS g12506.t6 24094597 24094597
chr_1 g12506 g12506.t6 TTS g12506.t6 NA NA

Sequences

>g12506.t6 Gene=g12506 Length=1339
ATGAATAGACTTAACTTTGTTACTTTCTTTCTCATTTTGGGGAACAACTTAATTTATATT
GATGCAGTTCCACCTTGCAATGATCCACCACTATGCCAAGAACTTATGGTTCTTGATCCA
GCACAATGTAAATGTGTTTGTGTAGATAATAGTGGAAGCAAACCTTGTCCACTTCCTTTT
CCAACAGATTTTCCATGTCCATGTATTCAAGGACTTTCTACTGTAAATTCTACTACTGCT
GCTCCAGTTGCAACAATTGGTGCTCAAACAATTGGACCTGTTGTCATAAGTCCTTGTAAA
GTTAAACCAATAGCTTGTCCACCACCAAAAACATTTTGGGATTCAAATTCATGCAAATGT
ATCTGCGATCCAGGAGTCGATTGTCTTCATCCAACTTTTGTAATGAATCCAGACACTTGT
CTTTGTGAATGTGCAATTAAACCAACAACACCATGTCCATCAAATCAATTTTTTAATCCT
GCAACATGTAAATGTCAATGCAAAGACAATTGTTTGGGTAATGAATCAATCATGTGTGTT
AAACCGCAAGTTTGGTCAGAAGACTCTTGTACTTGTAATTGTCCAAGTCCAAATACGCAA
ATTTGTAAATCTAATAAATATTGGGATTTTGATACTTGTAACTGTGAATGCAAAAATAAA
CAAAAAACTTGTTGTAAACCAAAAATATGGGATCCAACCAGCTGTCAATGTATTTGTCCA
TTTATACAAGCATGTAAAGCACCTTTCATTTGGAGCGATGATTTATGCCAATGTGTTTGC
AAACAGATAGTTTCATGTAAACCACCACTTGTATGGAATCCAAAACTCTGCAAATGTACA
TGTCCACCAATAGATTGTCCACCTAATTTCATGCAAAATCCTTTTACTTGTCAATGTATG
TGCAATCAAGCAATGTCAAAAACTTGTGATACGTCAATTCAAGTGTGGAATCCAAAAAAA
TGTCAATGCGATTGCAAATTTCCAGTTGATTGCATACCAAACTACATTTTTAATCCAAAA
ACATGTAAATGTGAATGCAACCAAGCTCTTTCTACATCTTGTAAGCCACCATTATCAATT
TGGGATAAGACAAAATGTAAATGTGTTTGCAACATTGATTGTGCACCAAATTATATTCTT
AATGAAGCAACTTGCAGTTGTGATTGCAATAAAGAACTTGTGTTATCTACTTGTGATCTC
AACACTCATGTTTTTAATCCTGATAAATGTTCGTGTGATTGCAAACCAATTGTATGCCCT
CCCAACTTTATTCAAAATCCTAAGACATGCAAATGTGACTGTGCACTTACTCAAGCTAGC
TGTCCAGCTCCTCAAATTT

>g12506.t6 Gene=g12506 Length=446
MNRLNFVTFFLILGNNLIYIDAVPPCNDPPLCQELMVLDPAQCKCVCVDNSGSKPCPLPF
PTDFPCPCIQGLSTVNSTTAAPVATIGAQTIGPVVISPCKVKPIACPPPKTFWDSNSCKC
ICDPGVDCLHPTFVMNPDTCLCECAIKPTTPCPSNQFFNPATCKCQCKDNCLGNESIMCV
KPQVWSEDSCTCNCPSPNTQICKSNKYWDFDTCNCECKNKQKTCCKPKIWDPTSCQCICP
FIQACKAPFIWSDDLCQCVCKQIVSCKPPLVWNPKLCKCTCPPIDCPPNFMQNPFTCQCM
CNQAMSKTCDTSIQVWNPKKCQCDCKFPVDCIPNYIFNPKTCKCECNQALSTSCKPPLSI
WDKTKCKCVCNIDCAPNYILNEATCSCDCNKELVLSTCDLNTHVFNPDKCSCDCKPIVCP
PNFIQNPKTCKCDCALTQASCPAPQI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g12506.t6 PANTHER PTHR11633:SF1 LD28763P 99 169 2.2E-26
11 g12506.t6 PANTHER PTHR11633 PLATELET-DERIVED GROWTH FACTOR 99 169 2.2E-26
5 g12506.t6 PANTHER PTHR11633:SF1 LD28763P 171 241 2.2E-26
10 g12506.t6 PANTHER PTHR11633 PLATELET-DERIVED GROWTH FACTOR 171 241 2.2E-26
7 g12506.t6 PANTHER PTHR11633:SF1 LD28763P 245 310 2.2E-26
12 g12506.t6 PANTHER PTHR11633 PLATELET-DERIVED GROWTH FACTOR 245 310 2.2E-26
4 g12506.t6 PANTHER PTHR11633:SF1 LD28763P 291 372 2.2E-26
9 g12506.t6 PANTHER PTHR11633 PLATELET-DERIVED GROWTH FACTOR 291 372 2.2E-26
3 g12506.t6 PANTHER PTHR11633:SF1 LD28763P 312 392 2.2E-26
8 g12506.t6 PANTHER PTHR11633 PLATELET-DERIVED GROWTH FACTOR 312 392 2.2E-26
2 g12506.t6 Pfam PF03128 CXCXC repeat 227 239 0.0071
1 g12506.t6 Pfam PF03128 CXCXC repeat 336 346 0.022
15 g12506.t6 Phobius SIGNAL_PEPTIDE Signal peptide region 1 22 -
16 g12506.t6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
17 g12506.t6 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 14 -
18 g12506.t6 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 22 -
14 g12506.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 23 446 -
13 g12506.t6 SignalP_EUK SignalP-noTM SignalP-noTM 1 22 -

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

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