General information for g4666.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein spire.
Parent gene
- The parent gene g4666 is located on chr_2: 3987558..4037369 (- 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 | g4666 | g4666.t1 | TTS | g4666.t1 | 3987011 | 3987011 |
| chr_2 | g4666 | g4666.t1 | isoform | g4666.t1 | 3987558 | 4037369 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon1 | 3987558 | 3987783 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS1 | 3987558 | 3987783 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon2 | 3987846 | 3988111 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS2 | 3987846 | 3988111 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon3 | 3988175 | 3988932 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS3 | 3988175 | 3988932 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon4 | 3989668 | 3989806 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS4 | 3989668 | 3989806 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon5 | 3991862 | 3992040 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS5 | 3991862 | 3992040 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon6 | 4004356 | 4004473 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS6 | 4004356 | 4004473 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon7 | 4006600 | 4006711 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS7 | 4006600 | 4006711 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon8 | 4006997 | 4007127 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS8 | 4006997 | 4007127 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon9 | 4012901 | 4013095 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS9 | 4012901 | 4013095 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon10 | 4019491 | 4019579 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS10 | 4019491 | 4019579 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon11 | 4021113 | 4021230 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS11 | 4021113 | 4021230 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon12 | 4024240 | 4024274 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS12 | 4024240 | 4024274 |
| chr_2 | g4666 | g4666.t1 | exon | g4666.t1.exon13 | 4037006 | 4037369 |
| chr_2 | g4666 | g4666.t1 | cds | g4666.t1.CDS13 | 4037006 | 4037369 |
| chr_2 | g4666 | g4666.t1 | TSS | g4666.t1 | 4037856 | 4037856 |
Sequences
>g4666.t1 Gene=g4666 Length=2730
ATGATGGAAAAAGTGGAAGAAAATAAAATCAATGAGAAAATGTCGTTGAAAACAAATCAT
CCAATTGAAATCATAGATCAATCACAAGCAAAGCTTCAGAGCTCTCTCGAGTTTTGCTCA
GATAAAGATAATTGTCTCTCACTTGACGATATTCTTCGATCTTTTAATGCACCATTATCA
GAAGAACAAGCCTGGTCGCTCATCTATCAATCTGTTCTATTCTATAGAAATTTTATAAAT
GTGGAATTTATCGATAAGAATACGCGAAAGGATTCGCGCAAATCATCTCATCGAATAAAA
GTTCCAAAATCACCGAAAAATTTAAATATACATAAAGATGGAACAGTTCATATTAATGAC
AAAAATCTCGAATGCTGTCTAATATCATCGCAAAAGAAGATACTTTTAAAAATCGGCATT
GTTGTGTATACGGCACTTGACTTTAATCTATCACAGGATGAAGAATGTATAATTTCATCA
GATTTAGAACAACTAATCAACTTAATGACATATGAAGAAGTCGATGACGAGGGCATCGAG
CGAGACTCTGAAGAAATTGACGATGAAAAATTTGTGGACTCTAAAGAATTGGACCATATA
CTCGAGTTGTGCAAACCGCGTGTGTTGCCCTCAAGTCCAGACGACCACTATCGAGCCGTG
TGTCGAGCATTGACAACGGAAAGTATTGAACTTCGAGTTTTTCTCTCGAAAGTTTTTACC
AATGATGCTGAAGCGTTGAGAATTAAAGCAGATGCTGAATCATCAAGGCAAGAATTGGCT
AAATTGGACTTTAGAGATTGGGCGAGATTTTGGATGCAAGTTGTAGATGAATTACGACGT
GGTGTGAGACTGAAGAAAATCAATTTTCATCACACGCCTACAGAATATGCATTGACACCA
TATGAGATATTAATGGAAGACATAAGATCGAGGAGGTATCAGCTAAGGAAAGTAATGGTC
AATGGCAGCATTCCGCCTCGTGTCAAGAAAGATGCAAGAGCAGTAATTTTAGAATTTATT
CGATCTCGGCCACCCCTACGAAAGGCAACTGATAGGAAATTGGCACCATTAAAACGTAAT
CCATCACCGCGCGAGCAACTACTTGACTCAATACGCAAAGGAAAGGTCTTAAAGCCAATT
GCGCCGGGACTGAAAAATCGATTATTACCGCCAAACACAGTGAACACAGCGAAGGCATCG
AAATTTGAGGACATTTGTAAGACAATAGTTGCAGAAGAAGGAGAATCCTCAATAATGTCT
CTGCCTGAAACAAATGCCACTTCATCCTCATCATCACAACCCTCTCGAAGACTGATAAGC
GTGGACTATTCATTATTTAAGGATGATGAAACTCCATCACCGTCATCGACATCAACAGAC
CAAAATAATCATAGCAGAAGCAGCTTCCATCAATCATCACGTACAGGCAAGGAACATGAG
AATAATCAGAACAACATCAACACAATTTTAAGGCGAACGACTTATGATTTAGCAACACAA
TGCGAATCGCGTCGTGCATCACTTCGTCGTCATACAATAGTGGGATGTCAAAGCTTTAAG
AGTATCAATGATAGTCATTCGGTTCCACCAAGTCGACCACAATCGAGACAATCAACAGAG
CACACTCAAATGTCTTCAACTTCATCGCCTGCACCACAACAACAAACTTCATCCGCAACT
ATGACAAACAATTGCTTTACAAGTACAAGTGCCGTGAAAACGCCACAACAACAGCCGAAT
TTGAATACAAATTTAAATACAATTAGTAGCACATGGGGAAAAAATTCACTTGATGAGCAA
GAATGGAGAGAGAAATTAACTGGCAGTGATCGTCTTTCGTTGACATTAGAAGAAATTGTT
CATATCCGTTCGGTAATAACGAAAGCCGAACTTGAAAGTTTACCAATGGGAATACAAATA
AAGGAAGATGTTGAGAAACGTAAACTCTGTTTCCTATGTTTACGAACAAAATTTGGCGTG
TTTGGTCCGCGTGGTGTTCCATGCAAGTTATGTCAACGAACAGTTTGTGCGAAATGTTAC
ACAAAAATGAGAATTCCGACAGAGCACTTTAGCAATGTTCCAGTTCAATTATTATCACCA
TCGAGACAAAATAGTCCATCATCAATATCAAATGTACCGTCGCCAAGTCATCATCATGGA
ATGGCAACAACAACAATGGATGAATCATTTCCTCGTTCTCTTATGGAAAGATTATTACGA
ACGGATGTTGATAGAAAGTCTCGTAATACAGTCGGATCTGCGCCTTCATCGCCTCGAAAT
CAACGTTCTGCATCAAGTACGCCAGGCTCTAGTCAACCAAACTCACTAACAATTATCAAT
AATGGTGTTTCAATAGCGCCACAAGCAGCAACAGTGTGTGCCAAAGAAAATCAAATATCA
CTGCGTAATTCAATAATGTCGCGCAGTATGGATGGTCCAAAAAGTCTTCCGCCACAGAGC
CCAAGAAGTTTACCACAATCTAATTGCAGCACATTGGATAGAAGAAGCACACTAAAGAAA
GCATTTGGAATAATGCAACCGCAACAGCAGCAACAACAACAATTATTTGACCAAAAAGAA
GGACTTCGTGGTGAATTGATGGCAGTTTGTAATGACTGTCGTGGTCTCGTACTCAATATA
ATTCGTTATTCACGAAAAACTCGTTCATCAGCGAGAAATATGCACTTGAAAAATTTAACA
TTGGACCTAAGTCCAGTGTACAAACGATAA
>g4666.t1 Gene=g4666 Length=909
MMEKVEENKINEKMSLKTNHPIEIIDQSQAKLQSSLEFCSDKDNCLSLDDILRSFNAPLS
EEQAWSLIYQSVLFYRNFINVEFIDKNTRKDSRKSSHRIKVPKSPKNLNIHKDGTVHIND
KNLECCLISSQKKILLKIGIVVYTALDFNLSQDEECIISSDLEQLINLMTYEEVDDEGIE
RDSEEIDDEKFVDSKELDHILELCKPRVLPSSPDDHYRAVCRALTTESIELRVFLSKVFT
NDAEALRIKADAESSRQELAKLDFRDWARFWMQVVDELRRGVRLKKINFHHTPTEYALTP
YEILMEDIRSRRYQLRKVMVNGSIPPRVKKDARAVILEFIRSRPPLRKATDRKLAPLKRN
PSPREQLLDSIRKGKVLKPIAPGLKNRLLPPNTVNTAKASKFEDICKTIVAEEGESSIMS
LPETNATSSSSSQPSRRLISVDYSLFKDDETPSPSSTSTDQNNHSRSSFHQSSRTGKEHE
NNQNNINTILRRTTYDLATQCESRRASLRRHTIVGCQSFKSINDSHSVPPSRPQSRQSTE
HTQMSSTSSPAPQQQTSSATMTNNCFTSTSAVKTPQQQPNLNTNLNTISSTWGKNSLDEQ
EWREKLTGSDRLSLTLEEIVHIRSVITKAELESLPMGIQIKEDVEKRKLCFLCLRTKFGV
FGPRGVPCKLCQRTVCAKCYTKMRIPTEHFSNVPVQLLSPSRQNSPSSISNVPSPSHHHG
MATTTMDESFPRSLMERLLRTDVDRKSRNTVGSAPSSPRNQRSASSTPGSSQPNSLTIIN
NGVSIAPQAATVCAKENQISLRNSIMSRSMDGPKSLPPQSPRSLPQSNCSTLDRRSTLKK
AFGIMQPQQQQQQQLFDQKEGLRGELMAVCNDCRGLVLNIIRYSRKTRSSARNMHLKNLT
LDLSPVYKR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g4666.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 40 | 236 | 1.7E-45 |
| 17 | g4666.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 608 | 706 | 5.8E-6 |
| 14 | g4666.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 446 | 488 | - |
| 13 | g4666.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 449 | 470 | - |
| 10 | g4666.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 521 | 560 | - |
| 9 | g4666.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 699 | 774 | - |
| 12 | g4666.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 699 | 730 | - |
| 11 | g4666.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 733 | 747 | - |
| 15 | g4666.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 748 | 774 | - |
| 2 | g4666.t1 | PANTHER | PTHR21345 | SPIRE | 39 | 901 | 7.1E-188 |
| 3 | g4666.t1 | PANTHER | PTHR21345:SF3 | PROTEIN SPIRE | 39 | 901 | 7.1E-188 |
| 1 | g4666.t1 | Pfam | PF16474 | Kinase non-catalytic C-lobe domain | 46 | 235 | 1.3E-37 |
| 20 | g4666.t1 | ProSiteProfiles | PS51377 | KIND domain profile. | 46 | 231 | 34.588 |
| 18 | g4666.t1 | ProSiteProfiles | PS51082 | WH2 domain profile. | 300 | 318 | 6.431 |
| 19 | g4666.t1 | ProSiteProfiles | PS51082 | WH2 domain profile. | 363 | 380 | 8.711 |
| 8 | g4666.t1 | SMART | SM00750 | kind | 46 | 231 | 2.3E-26 |
| 5 | g4666.t1 | SMART | SM00246 | wh2_8 | 300 | 318 | 200.0 |
| 7 | g4666.t1 | SMART | SM00246 | wh2_8 | 332 | 349 | 810.0 |
| 6 | g4666.t1 | SMART | SM00246 | wh2_8 | 363 | 380 | 0.67 |
| 4 | g4666.t1 | SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 613 | 692 | 1.84E-10 |
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:0003779 | actin binding | MF |
| GO:0045010 | actin nucleation | BP |
| GO:0016192 | vesicle-mediated transport | BP |
KEGG
Orthology
- This transcript has been annotated with K02098 (spire)
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.
