General information for g6698.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Fasciclin-2.
Parent gene
- The parent gene g6698 is located on chr_2: 18103511..18104056 (+ 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 | g6698 | g6698.t3 | isoform | g6698.t3 | 18102757 | 18104056 |
| chr_2 | g6698 | g6698.t3 | exon | g6698.t3.exon1 | 18102757 | 18102765 |
| chr_2 | g6698 | g6698.t3 | exon | g6698.t3.exon2 | 18102824 | 18103148 |
| chr_2 | g6698 | g6698.t3 | cds | g6698.t3.CDS1 | 18102901 | 18103148 |
| chr_2 | g6698 | g6698.t3 | exon | g6698.t3.exon3 | 18103206 | 18103440 |
| chr_2 | g6698 | g6698.t3 | cds | g6698.t3.CDS2 | 18103206 | 18103440 |
| chr_2 | g6698 | g6698.t3 | exon | g6698.t3.exon4 | 18103505 | 18103899 |
| chr_2 | g6698 | g6698.t3 | cds | g6698.t3.CDS3 | 18103505 | 18103899 |
| chr_2 | g6698 | g6698.t3 | exon | g6698.t3.exon5 | 18103957 | 18104056 |
| chr_2 | g6698 | g6698.t3 | cds | g6698.t3.CDS4 | 18103957 | 18104056 |
| chr_2 | g6698 | g6698.t3 | TTS | g6698.t3 | 18104839 | 18104839 |
| chr_2 | g6698 | g6698.t3 | TSS | g6698.t3 | NA | NA |
Sequences
>g6698.t3 Gene=g6698 Length=1064
ACTTGATAGTTAGACCTGTTGAGCGCAGATATTATTCTGCATATAAATGTATAGCTGTAA
ATAAAATTGGAAGAGCTGAACACATTATGGAATTAAGAGAAGCACACTTGCCTTCAGCTG
TAGCACAAGCTAAGCCTATAGAAGTTACAGCAACAACAATAACATTTGATATAATAGGGC
CACCATTTGAAATTGGTATGCCTATAAAAGCTTATACTGCACAATATAAGGAAGAAAGGA
ATCCTGATTGGTTATATGCATTCAATCGAACGTGGTCCACAGACACACCCTATGTCATTG
AAGGATTAAGACCGCAGACAATGTATACCTTTAGATTTGCAGCAAGAAATGATGTGGGTC
TTGGTCAATGGAGCGCTATTAAAGTTCAAGCAACTCCTTCTCGATCAACACCCGAAACGC
CAAAAATTTTAAATCAATTTGCACAAGAAGTTGAAGATGGAGAATTACCTATAATAACTT
CATTGTTTGCAGACAGATTTGAACTTATATGGAACCGACCTCCTGATAATGGAGAACCAA
TCGATTTTTATGCTATAAAATATTGTCCAGGAAACAAAATTAACAATAATTGGAATGAAA
TAGGAAGACTATGCAATGAACAAAGTTATATTGCATACACATTTTCTAATTTTGTGCTTA
AGAGATTAATGCCTGATACATACTATAAGATAGAACTAAGAGCTCATAACGCTATAGGTT
TCTCATCTCCAGCTTATGCATACCTAAAAACAGCTAGAGGAGCAGAATTAAAAGGGGATA
TTGAAAGAATAGAAGAAGAGCATTTTCATTTATCATCCATTTCAATCGTATTGATTGCAA
TTTTAGCAATTATCTTAATATTACTTTTAATTGACCTCACTTTCTGTATTACAAAAGATT
TAGGTATCTTTGCATTAATTTTTTCGCGAAAATCCCATACTACAAATCAAAGAAGGTTTG
AAAGACAAAATGAAAAAAGAGAGCTAATAACAGTTTTTGGACAACAAAGACAACGTCAGC
AACAGCATTCAAATGATGCAATTGGAAAGAATTCGTCCGTGTAG
>g6698.t3 Gene=g6698 Length=325
MELREAHLPSAVAQAKPIEVTATTITFDIIGPPFEIGMPIKAYTAQYKEERNPDWLYAFN
RTWSTDTPYVIEGLRPQTMYTFRFAARNDVGLGQWSAIKVQATPSRSTPETPKILNQFAQ
EVEDGELPIITSLFADRFELIWNRPPDNGEPIDFYAIKYCPGNKINNNWNEIGRLCNEQS
YIAYTFSNFVLKRLMPDTYYKIELRAHNAIGFSSPAYAYLKTARGAELKGDIERIEEEHF
HLSSISIVLIAILAIILILLLIDLTFCITKDLGIFALIFSRKSHTTNQRRFERQNEKREL
ITVFGQQRQRQQQHSNDAIGKNSSV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g6698.t3 | CDD | cd00063 | FN3 | 9 | 103 | 4.25162E-13 |
| 10 | g6698.t3 | CDD | cd00063 | FN3 | 128 | 216 | 2.97142E-10 |
| 6 | g6698.t3 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 5 | 118 | 3.6E-16 |
| 5 | g6698.t3 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 119 | 223 | 2.3E-11 |
| 2 | g6698.t3 | PANTHER | PTHR12231 | CTX-RELATED TYPE I TRANSMEMBRANE PROTEIN | 1 | 269 | 6.7E-49 |
| 3 | g6698.t3 | PANTHER | PTHR12231:SF245 | AGAP002802-PA | 1 | 269 | 6.7E-49 |
| 1 | g6698.t3 | Pfam | PF00041 | Fibronectin type III domain | 13 | 96 | 7.4E-11 |
| 8 | g6698.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 239 | - |
| 9 | g6698.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 240 | 262 | - |
| 7 | g6698.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 263 | 325 | - |
| 15 | g6698.t3 | ProSiteProfiles | PS50853 | Fibronectin type-III domain profile. | 8 | 106 | 15.44 |
| 16 | g6698.t3 | ProSiteProfiles | PS50853 | Fibronectin type-III domain profile. | 124 | 226 | 11.306 |
| 14 | g6698.t3 | SMART | SM00060 | FN3_2 | 9 | 93 | 1.1E-5 |
| 13 | g6698.t3 | SMART | SM00060 | FN3_2 | 119 | 213 | 0.063 |
| 4 | g6698.t3 | SUPERFAMILY | SSF49265 | Fibronectin type III | 8 | 216 | 1.65E-25 |
| 12 | g6698.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 240 | 262 | - |
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:0005515 | protein binding | MF |
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.
