General information for g8634.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Lamin Dm0.
Parent gene
- The parent gene g8634 is located on chr_2: 31950619..31951572 (+ 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_2 | g8634 | g8634.t5 | isoform | g8634.t5 | 31949418 | 31950619 |
| chr_2 | g8634 | g8634.t5 | exon | g8634.t5.exon1 | 31949418 | 31950094 |
| chr_2 | g8634 | g8634.t5 | cds | g8634.t5.CDS1 | 31949465 | 31950094 |
| chr_2 | g8634 | g8634.t5 | exon | g8634.t5.exon2 | 31950153 | 31950374 |
| chr_2 | g8634 | g8634.t5 | cds | g8634.t5.CDS2 | 31950153 | 31950374 |
| chr_2 | g8634 | g8634.t5 | exon | g8634.t5.exon3 | 31950434 | 31950519 |
| chr_2 | g8634 | g8634.t5 | cds | g8634.t5.CDS3 | 31950434 | 31950519 |
| chr_2 | g8634 | g8634.t5 | exon | g8634.t5.exon4 | 31950578 | 31950619 |
| chr_2 | g8634 | g8634.t5 | cds | g8634.t5.CDS4 | 31950578 | 31950617 |
| chr_2 | g8634 | g8634.t5 | TTS | g8634.t5 | 31950921 | 31950921 |
| chr_2 | g8634 | g8634.t5 | TSS | g8634.t5 | NA | NA |
Sequences
>g8634.t5 Gene=g8634 Length=1027
AATTACAACAAACGCTTCAAGAATTGCGCGATCAATATGAGAGTCAAATGCGCGCAAATC
GCGAAGAAATCGAAGGATTGTATGAGAACAAAATCAAGAGTCTTCAAGCACAAATTTCTC
GTAGCAATAATGCTTCTACTGCTATTCATGATGAACTTCTTCAAGTTCGTTCACGCGCTG
ATACGCTTAACAGCAAGATTGCCGATTTGGAGGCCATTAATGCAGGTTTATCTGCTCGTA
TTCGCGATTTAGAAAGCATTCTCGATGGAGAGCGTGCAAAATCGCAACGAGAATTAAAAC
TCGTAGAAGCAGAATTGGAACGTCTTCGTGAAGAAATGCGTCAACAATTACTTGAATATC
AGGATCTTATGGATATCAAAGTTTCGCTCGATTTGGAACTTGCTGCTTATCGCAAGCTTT
TAGAGTCGGAAGAGACTCGTTTGAACATCACACCCACTCAATCACAAACGTCGTCTTTTT
CTCAATCACTAAGAGCTGGTAGATCAACTCCAGTTCAGTTTCGTACGCCCTCGAGAGCAG
GGAAGCGCAAACGTGCAGTCTTTGAAGACGAAGATCAAACAAACTTCAGTGTAACTTCAT
CAGCAAAGGGTGAAATTGAAATTACAGAAGTCGATCCAGAAGGAAAATTTGTTAAACTGC
TAAATCGTGGAGCTAAAGAGGTACAAATTGGTGGGTGGCAGTTAGTTCGTAAAAGTGGTG
ACAACGAAACTTTGTTCAAATTCCATCGAACAGTCAAAGTCGATGCTGGACAAATCATAA
CAATCTGGTCTTCTGATAGCGGTGTCACGCATGAACCGCCAACAAATATTGTCATGAAAG
GGCAAAGATTCTTTGTTAGTGACAATATGTCAACAAGCTTGCTTAATGGAGAAGGAGAGT
GGCAACTCATGAAAGAAAACTCGTCCAACGTTCAATTCATCGTGAATTCGGTTATCGAGG
AATCGAAGATTTTCATCATCAACAAGGAGACCCAGCATCAGGAGAAGAAAAATGCCGTAT
TATGTAA
>g8634.t5 Gene=g8634 Length=326
MRANREEIEGLYENKIKSLQAQISRSNNASTAIHDELLQVRSRADTLNSKIADLEAINAG
LSARIRDLESILDGERAKSQRELKLVEAELERLREEMRQQLLEYQDLMDIKVSLDLELAA
YRKLLESEETRLNITPTQSQTSSFSQSLRAGRSTPVQFRTPSRAGKRKRAVFEDEDQTNF
SVTSSAKGEIEITEVDPEGKFVKLLNRGAKEVQIGGWQLVRKSGDNETLFKFHRTVKVDA
GQIITIWSSDSGVTHEPPTNIVMKGQRFFVSDNMSTSLLNGEGEWQLMKENSSNVQFIVN
SVIEESKIFIINKETQHQEKKNAVLC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g8634.t5 | Coils | Coil | Coil | 44 | 71 | - |
| 12 | g8634.t5 | Coils | Coil | Coil | 76 | 110 | - |
| 9 | g8634.t5 | Gene3D | G3DSA:1.20.5.170 | - | 49 | 132 | 5.7E-21 |
| 10 | g8634.t5 | Gene3D | G3DSA:2.60.40.1260 | Lamin A/C globular tail domain | 152 | 295 | 3.9E-44 |
| 7 | g8634.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 160 | - |
| 8 | g8634.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 171 | - |
| 3 | g8634.t5 | PANTHER | PTHR45721:SF11 | LAMIN DM0-RELATED | 1 | 285 | 1.4E-88 |
| 4 | g8634.t5 | PANTHER | PTHR45721 | LAMIN DM0-RELATED | 1 | 285 | 1.4E-88 |
| 2 | g8634.t5 | Pfam | PF00038 | Intermediate filament protein | 2 | 131 | 1.3E-28 |
| 1 | g8634.t5 | Pfam | PF00932 | Lamin Tail Domain | 184 | 283 | 2.2E-15 |
| 13 | g8634.t5 | ProSiteProfiles | PS51842 | Intermediate filament (IF) rod domain profile. | 1 | 132 | 23.264 |
| 14 | g8634.t5 | ProSiteProfiles | PS51841 | Lamin-tail (LTD) domain profile. | 178 | 301 | 20.554 |
| 6 | g8634.t5 | SUPERFAMILY | SSF64593 | Intermediate filament protein, coiled coil region | 60 | 131 | 6.8E-18 |
| 5 | g8634.t5 | SUPERFAMILY | SSF74853 | Lamin A/C globular tail domain | 163 | 284 | 3.01E-36 |
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
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
