General information for g11306.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Calcium homeostasis endoplasmic reticulum protein.
Parent gene
- The parent gene g11306 is located on chr_1: 15510949..15511635 (- strand)
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 | g11306 | g11306.t1 | TTS | g11306.t1 | 15508085 | 15508085 |
| chr_1 | g11306 | g11306.t1 | isoform | g11306.t1 | 15508188 | 15511635 |
| chr_1 | g11306 | g11306.t1 | exon | g11306.t1.exon1 | 15508188 | 15509511 |
| chr_1 | g11306 | g11306.t1 | cds | g11306.t1.CDS1 | 15508188 | 15509511 |
| chr_1 | g11306 | g11306.t1 | exon | g11306.t1.exon2 | 15509565 | 15509763 |
| chr_1 | g11306 | g11306.t1 | cds | g11306.t1.CDS2 | 15509565 | 15509763 |
| chr_1 | g11306 | g11306.t1 | exon | g11306.t1.exon3 | 15509825 | 15509901 |
| chr_1 | g11306 | g11306.t1 | cds | g11306.t1.CDS3 | 15509825 | 15509901 |
| chr_1 | g11306 | g11306.t1 | exon | g11306.t1.exon4 | 15510005 | 15510079 |
| chr_1 | g11306 | g11306.t1 | cds | g11306.t1.CDS4 | 15510005 | 15510079 |
| chr_1 | g11306 | g11306.t1 | exon | g11306.t1.exon5 | 15510401 | 15510473 |
| chr_1 | g11306 | g11306.t1 | cds | g11306.t1.CDS5 | 15510401 | 15510473 |
| chr_1 | g11306 | g11306.t1 | exon | g11306.t1.exon6 | 15510782 | 15510944 |
| chr_1 | g11306 | g11306.t1 | cds | g11306.t1.CDS6 | 15510782 | 15510944 |
| chr_1 | g11306 | g11306.t1 | exon | g11306.t1.exon7 | 15511167 | 15511366 |
| chr_1 | g11306 | g11306.t1 | cds | g11306.t1.CDS7 | 15511167 | 15511366 |
| chr_1 | g11306 | g11306.t1 | exon | g11306.t1.exon8 | 15511428 | 15511635 |
| chr_1 | g11306 | g11306.t1 | cds | g11306.t1.CDS8 | 15511428 | 15511635 |
| chr_1 | g11306 | g11306.t1 | TSS | g11306.t1 | 15511705 | 15511705 |
Sequences
>g11306.t1 Gene=g11306 Length=2319
ATGGCGATGCCTTTAAGGCCAGCTGATTCGCAATTAGCAACTATAATTGATAGACTTGCA
GAATTCGTTGCAAGAAACGGACCCGAATTTGAGAAAATGACAAAAATTAAACAACAAAAC
AATGAAAGATTTTCATTTTTACAACCGGGTGAACTGTATAATGATTATTATCAAAGCAAA
GTAATGGAGGAAAGAAGAAAGATTATGGGAACATTATCTCCAAATAATAATTTTCCTCAA
CAGCAACAGTCCAACATTTGGTTGACGACGACAGGTAGCAATGGAAGTTCCCATAATACT
GTGGCACAAGCAAATATTGCAGCTCAAATTGAAGAAATAAATTCACAACAAATGAGACTT
CGTGAACAGCTAATTGAAAGTGAAAAGAACTTGAACGCACAACATCAGGTCTTGTTGCAA
CAACAAAAAAATGAAATTGAGGAGACAATATCTAAAGCACAAATGGAACATATAAAGTTA
TGTGCTCAAGAAAACGAGATATCGCTAACTGAACTTGATGAGATTCTTCAGCCAATAATT
GATTCCTGCACAAAAGACAGTATTGCAAATGGAAAAGCATCGATATTGCAACAAGCAACA
AATTCAGCTAAAAGACAAATTATCTCGCAATATATTCTAAAAAAGGCAATGTCACCGAAC
GCTGTATTTAATCAAAAATTACATCTAATCTATTTAATTAATGATTTACTACATCACTGT
GTCAAAAAGAATGCGGATGACTTGAAAAACTGCCTGGAGAGTGTCGTTATACCTATGTTT
TGCAACGCTACAATGAGTGCGAATGAGGAACAAAAGGATAAATTGAGTAAATTGCTTACA
CTTTGGGCATCCAAAGCGAATTTCTTTGACTCGTGTGCCATTTCAAAACTTCAGTCACCA
CCATCATCACTACAGGAATATCATAATTCTCTGTTAAGTCAATACTCAGCCGCTGTTACA
TCGCTAACTCAAGCTACTAAAAAGAAATTTGATGACTATCGACAACAACATCAAACTTTT
GTTGAACATGCAACCAAGCAAATTGCAATTTTAGAGACTCAAAAACAAGCGCTTGAACAG
CAAAGTTTAAACTTAAAGCAGCAACCTATTCCTATTTCTTCGCAACAGCAAATGTTATCC
CATGATTTATCCCAAAATTCTCAACCATCAATGATTCCATCAATTCTAAACAATGTTAAT
GTCAATATGATGTTATCGCAAAATCGTAACGATTTAAATTTGTTGCAAAATATCTGTGTG
AATAATACTAGTAATCAGAATTATCAGAGTGTATCACATAACATTTCAATGCAACAACAG
CAACAATTTAATCAACAACAAGAACAGCAACACCAACAATTTGTCAACTTCAATCTTCCA
CCACCAAACCTTTCGATTCCAGATATGTCAAGACCACCGCCTAATTTTCAATCAATAGAT
CAAGGATTACCGATTGCTAATGAACCAAGCATTGAGATTGATTTAACTCCAAAATTACCA
TTTTTTGAACTTCCAGCAGGATTAATGGTTCCTCTTATAAGACTTGAAGATTACAAATAT
CGTCCAATCGATCCAGCAATGATTCAACTGCCAATGCCATCGTCAAATGATAAATTACTT
GCCGCTATTGAGGCATTTTATGCAGCTCCTTCTCATGAGAGACCTCGAGATGGAGAAGGA
TGGGAAAAATTAAGTTTATATGAATACTTTAAAGTGAAAAATTCTGTGAAAAAAATTAAG
GAGGATGCTATTGCAAGGTTTGAGCGAGAAAAATCAAAATCGCCTTCTCCTATACCGGAA
AATCTAACAAAACCACCAAAAAAGATTAGAAAAAGAGTTTATCGCTCCGAGAGTCCTGAA
AAGCGATCTAAAAGCAGATCGCGATCTAAATCGCCAGAACAAATGAAACCTCTAGTTGTT
ACATCAAGGAGAAAGCAACGTTCAAGAAGTCCTTCATCACCTTATCGTAGTTTTAAAAGA
GGAGCTGGAGGAGATTCCAGAAATGAAAGAAATAATAGAAAAAGAAGTGTCACGCCACCT
AGTTTTGCTGTAACTTCCAATAAAAATACAGAATTCATAGATGAAAATAATAAAGGACAT
CAATTACTCAAAAAACTTGGTTGGCAGAGTGGTGGTTTAGGTGTAAGTAATCAAGGTATA
TCACAACCAATATCAGGAGGTGAAGTGAGAGATCGTAATGATTTTTATAAAGGAATTGGG
ATGAGTAATGTAAACGATCCATATGAAAATTTTCGCAAGAACAGAAGTAATAATTTTATT
ACAAGAATGAAATCAAGATCTGAAGCGGAAAAAAATTAA
>g11306.t1 Gene=g11306 Length=772
MAMPLRPADSQLATIIDRLAEFVARNGPEFEKMTKIKQQNNERFSFLQPGELYNDYYQSK
VMEERRKIMGTLSPNNNFPQQQQSNIWLTTTGSNGSSHNTVAQANIAAQIEEINSQQMRL
REQLIESEKNLNAQHQVLLQQQKNEIEETISKAQMEHIKLCAQENEISLTELDEILQPII
DSCTKDSIANGKASILQQATNSAKRQIISQYILKKAMSPNAVFNQKLHLIYLINDLLHHC
VKKNADDLKNCLESVVIPMFCNATMSANEEQKDKLSKLLTLWASKANFFDSCAISKLQSP
PSSLQEYHNSLLSQYSAAVTSLTQATKKKFDDYRQQHQTFVEHATKQIAILETQKQALEQ
QSLNLKQQPIPISSQQQMLSHDLSQNSQPSMIPSILNNVNVNMMLSQNRNDLNLLQNICV
NNTSNQNYQSVSHNISMQQQQQFNQQQEQQHQQFVNFNLPPPNLSIPDMSRPPPNFQSID
QGLPIANEPSIEIDLTPKLPFFELPAGLMVPLIRLEDYKYRPIDPAMIQLPMPSSNDKLL
AAIEAFYAAPSHERPRDGEGWEKLSLYEYFKVKNSVKKIKEDAIARFEREKSKSPSPIPE
NLTKPPKKIRKRVYRSESPEKRSKSRSRSKSPEQMKPLVVTSRRKQRSRSPSSPYRSFKR
GAGGDSRNERNNRKRSVTPPSFAVTSNKNTEFIDENNKGHQLLKKLGWQSGGLGVSNQGI
SQPISGGEVRDRNDFYKGIGMSNVNDPYENFRKNRSNNFITRMKSRSEAEKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g11306.t1 | Coils | Coil | Coil | 110 | 156 | - |
| 10 | g11306.t1 | Coils | Coil | Coil | 341 | 368 | - |
| 8 | g11306.t1 | Gene3D | G3DSA:1.10.10.790 | - | 2 | 69 | 1.6E-19 |
| 7 | g11306.t1 | Gene3D | G3DSA:1.25.40.90 | - | 166 | 310 | 1.4E-26 |
| 15 | g11306.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 588 | 690 | - |
| 13 | g11306.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 604 | 631 | - |
| 14 | g11306.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 675 | 690 | - |
| 4 | g11306.t1 | PANTHER | PTHR12323 | SR-RELATED CTD ASSOCIATED FACTOR 6 | 4 | 768 | 1.3E-167 |
| 1 | g11306.t1 | Pfam | PF01805 | Surp module | 14 | 62 | 2.4E-15 |
| 3 | g11306.t1 | Pfam | PF04818 | CID domain | 174 | 297 | 6.4E-24 |
| 2 | g11306.t1 | Pfam | PF01585 | G-patch domain | 696 | 741 | 1.4E-8 |
| 18 | g11306.t1 | ProSiteProfiles | PS50128 | SURP motif repeat profile. | 15 | 57 | 17.234 |
| 16 | g11306.t1 | ProSiteProfiles | PS51391 | CID domain profile. | 164 | 305 | 30.649 |
| 17 | g11306.t1 | ProSiteProfiles | PS50174 | G-patch domain profile. | 695 | 744 | 11.621 |
| 11 | g11306.t1 | SMART | SM00648 | surpneu2 | 13 | 66 | 1.6E-18 |
| 12 | g11306.t1 | SMART | SM00443 | G-patch_5 | 693 | 742 | 2.2E-7 |
| 5 | g11306.t1 | SUPERFAMILY | SSF109905 | Surp module (SWAP domain) | 4 | 64 | 5.49E-18 |
| 6 | g11306.t1 | SUPERFAMILY | SSF48464 | ENTH/VHS domain | 206 | 286 | 2.35E-6 |
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:0006396 | RNA processing | BP |
| GO:0003723 | RNA binding | MF |
| GO:0006874 | cellular calcium ion homeostasis | BP |
| GO:0003676 | nucleic acid binding | MF |
KEGG
Orthology
- This transcript has been annotated with K12841 (calcium homeostasis endoplasmic reticulum protein)
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.
