General information for g2976.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Flotillin-2.
Parent gene
- The parent gene g2976 is located on chr_3: 21687309..21687836 (- 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_3 | g2976 | g2976.t1 | TTS | g2976.t1 | 21677841 | 21677841 |
| chr_3 | g2976 | g2976.t1 | isoform | g2976.t1 | 21678859 | 21687333 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon1 | 21678859 | 21679044 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS1 | 21678859 | 21679044 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon2 | 21679101 | 21679202 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS2 | 21679101 | 21679202 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon3 | 21679285 | 21679581 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS3 | 21679285 | 21679581 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon4 | 21679640 | 21679917 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS4 | 21679640 | 21679917 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon5 | 21679993 | 21680004 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS5 | 21679993 | 21680004 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon6 | 21680355 | 21680417 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS6 | 21680355 | 21680417 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon7 | 21684557 | 21684665 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS7 | 21684557 | 21684665 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon8 | 21686636 | 21686823 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS8 | 21686636 | 21686823 |
| chr_3 | g2976 | g2976.t1 | exon | g2976.t1.exon9 | 21687309 | 21687333 |
| chr_3 | g2976 | g2976.t1 | cds | g2976.t1.CDS9 | 21687309 | 21687333 |
| chr_3 | g2976 | g2976.t1 | TSS | g2976.t1 | NA | NA |
Sequences
>g2976.t1 Gene=g2976 Length=1260
ATGTGTAATTTAATATTCACAAAGTGTGGATGCTGCGGATCGACAAGAAAAAGAACAATT
GTTGGTGGATGGGCTTGGGCGTGGTGGCTCGTAACAGATGTTCAAAAGCTTTCTCTGGAA
GTGATGACACTCAACCCAATGTGCGAAATGGTCGAAACAGCTCAGGGTGTCGCGCTCACT
GTCACTGGTGTTGCTCAAGTCAAAATAATGAAGGCGGACGAACTTTTGGGCACAGCTAGT
GAGCAGTTCCTTGGTAAATCAGTGAAAGAGATCAAGCAGACAATTCTACAAACTCTGGAG
GGTCATTTGCGTGCCATTCTAGGAACTCTTACGGTCGAAGAGGTATACAAAGACCGCGAC
CAATTTGCTGCCCTAGTACGTGAGGTTGCATCTCCAGATGTCGGTCGAATGGGCATAGAG
ATCCTTTCGTTCACGATTAAAGATGTTTATGATGATGTACAATATTTGCAATCGCTTGGT
AAGGCTCAAACGGCTAGTGTTAAACGTGACGCCGATTCGGGTGTAGCAGAGGCAAATCGA
GATGCTGGAATACGTGAAGCTGAATGTGAAAAAGCAGCTATGGATGTAAAATATTCAACT
GACACCAAGATAGAGGACAATACAAGAATGTATAAACTTCAAAAGGCCAATTTCGATCAA
GAGATCAACACAGCGAAAGCCGAATCTGCACTTGCCTACGAACTGCAAGCTGCCAAAATC
CGCCAAAAAATCCGTAATGAGGAAATTCAAATTGATGTTGTCGAACGAAAGAAGCAAATT
GAAGTCGAATCTCAAGAGATTTTAAGAAAAGATTGCGAATTGACAGCAACAGTGAAACTG
CCAGCAGAGGCTGAAAGTTATAGAGTGCAGGCTATTGCTGAGGGTAAACGAACACAAACA
TTGGAAGTAGCTCGTGCTGAGGCAGAAAGAATAAAGAAACTTGGTGCTGCTGAAGCTTTA
GCTATTGAATTGGTTGGTAAAGCTGAAGCAGAAAGAATGAGAATGAAGGCAAGCGTTTAC
AAACAATATGGAGATGCTGCCATCATGAACATTGTTTTGGAATCATTGCCTAAGATTGCC
GCAGAAGCAGCTGCACCACTCGCCAAGACCGAAGAGATTGTTCTCATCGGCGGAAATGAC
AGTACAACGGGTGATATTGCTCGTCTTGTAGGTCAACTGCCACCTGCAGTGAATGCCTTG
ACCGGTGTCGACCTTACGAAAGTTTTGGGCAAGATACCGGGTGCTAAAGTCCAAAATTAA
>g2976.t1 Gene=g2976 Length=419
MCNLIFTKCGCCGSTRKRTIVGGWAWAWWLVTDVQKLSLEVMTLNPMCEMVETAQGVALT
VTGVAQVKIMKADELLGTASEQFLGKSVKEIKQTILQTLEGHLRAILGTLTVEEVYKDRD
QFAALVREVASPDVGRMGIEILSFTIKDVYDDVQYLQSLGKAQTASVKRDADSGVAEANR
DAGIREAECEKAAMDVKYSTDTKIEDNTRMYKLQKANFDQEINTAKAESALAYELQAAKI
RQKIRNEEIQIDVVERKKQIEVESQEILRKDCELTATVKLPAEAESYRVQAIAEGKRTQT
LEVARAEAERIKKLGAAEALAIELVGKAEAERMRMKASVYKQYGDAAIMNIVLESLPKIA
AEAAAPLAKTEEIVLIGGNDSTTGDIARLVGQLPPAVNALTGVDLTKVLGKIPGAKVQN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2976.t1 | CDD | cd03399 | SPFH_flotillin | 26 | 170 | 7.42654E-64 |
| 7 | g2976.t1 | Coils | Coil | Coil | 237 | 257 | - |
| 6 | g2976.t1 | Gene3D | G3DSA:3.30.479.30 | - | 37 | 153 | 2.8E-42 |
| 2 | g2976.t1 | PANTHER | PTHR13806 | FLOTILLIN-RELATED | 11 | 416 | 9.5E-202 |
| 3 | g2976.t1 | PANTHER | PTHR13806:SF44 | FLOTILLIN-2 | 11 | 416 | 9.5E-202 |
| 1 | g2976.t1 | Pfam | PF01145 | SPFH domain / Band 7 family | 19 | 178 | 3.8E-17 |
| 5 | g2976.t1 | SMART | SM00244 | PHB_4 | 79 | 261 | 2.4E-9 |
| 4 | g2976.t1 | SUPERFAMILY | SSF117892 | Band 7/SPFH domain | 28 | 170 | 1.57E-35 |
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 transcript has been annotated with K07192 (flotillin)
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.
