General information for g11516.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytoplasmic FMR1-interacting protein.
Parent gene
- The parent gene g11516 is located on chr_1: 16754336..16756174 (- 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 | g11516 | g11516.t1 | TTS | g11516.t1 | 16751247 | 16751247 |
| chr_1 | g11516 | g11516.t1 | isoform | g11516.t1 | 16751558 | 16755719 |
| chr_1 | g11516 | g11516.t1 | exon | g11516.t1.exon1 | 16751558 | 16751640 |
| chr_1 | g11516 | g11516.t1 | cds | g11516.t1.CDS1 | 16751558 | 16751640 |
| chr_1 | g11516 | g11516.t1 | exon | g11516.t1.exon2 | 16751701 | 16751945 |
| chr_1 | g11516 | g11516.t1 | cds | g11516.t1.CDS2 | 16751701 | 16751945 |
| chr_1 | g11516 | g11516.t1 | exon | g11516.t1.exon3 | 16752001 | 16755134 |
| chr_1 | g11516 | g11516.t1 | cds | g11516.t1.CDS3 | 16752001 | 16755134 |
| chr_1 | g11516 | g11516.t1 | exon | g11516.t1.exon4 | 16755198 | 16755377 |
| chr_1 | g11516 | g11516.t1 | cds | g11516.t1.CDS4 | 16755198 | 16755377 |
| chr_1 | g11516 | g11516.t1 | exon | g11516.t1.exon5 | 16755451 | 16755577 |
| chr_1 | g11516 | g11516.t1 | cds | g11516.t1.CDS5 | 16755451 | 16755577 |
| chr_1 | g11516 | g11516.t1 | exon | g11516.t1.exon6 | 16755637 | 16755719 |
| chr_1 | g11516 | g11516.t1 | cds | g11516.t1.CDS6 | 16755637 | 16755719 |
| chr_1 | g11516 | g11516.t1 | TSS | g11516.t1 | 16756116 | 16756116 |
Sequences
>g11516.t1 Gene=g11516 Length=3852
ATGGCAAATGAACGAGTTACTTTAGCGGATGCTTTGAGTAATGTTGAGATTTTAGACGAA
AGACCACTCCCAGATGAACAACCACTCATAGAAGCTTCAACTTGTTCAATCACATATCAG
GCAAATTTTGATACAAACTTTGAAGATCGTAATGGCTTCGTCACAGGCATTGCAAAATAC
ATCGAAGAAGCAACAACTCATGCAAATCTAAATATTCTACTTGAAGAAGGTCAAAAACAT
GCAGTTATGTTGTATACTTGGCGTTGTTGTTCACGTGCAATTCCTCAACCAAAGTCAAAC
GAACAACCGAATCGAGTTGAAATTTATGAAAAAACTGTTGAAGTACTTGCGCCAGAAGTG
AACAAACTCCTCAATTTCATGTACTTTCAGAAAAAAGCTATTGAAGTCTTCTCAGCTGAA
GTTAAACGTTTATGTCATGCCGAAAAACGTAAAGATTTTGTCTCAGAAGCTTACTTATTG
ACTCTTGGTAAATTCATCAACATGTTTGCCGTGTTGGATGAGTTGAAAAATATGAAAAGT
TCTGTGAAGAATGATTATTCAACTTATCGTCGTGCCGCTCAATTTTTAAAAGTTATGTCT
GATTCTCATACACTGCAAGAATCACAAAATTTGTCAATGTTTTTGGCTACTCAAAATAAG
ATTCGCGATACTGTAAAGGATACACTTGAAAAGATTCCTGGTTTCGAGGAACTAATTTGT
GAAGTCGTTAATATATGTGTACATATGTTTGAACAAAAGATGTTTCTTACACCAGAAGAG
AAGCATATGCTTGTGAAAGTTTGTGGTTTTGGATTGTTTTTGATGGATTCGGAAATGTGC
AATATCAATAAACTCGATCAGAAAAAGAAATTACGATTGGATCGCATTGACAGAATTTTT
AAAAATTTAGAAGTTGTACCACTTTTTGGTGATATGCAAATTAATCCTTTTAACTATGTT
AGAAAAAGTAAACATTTTGATGCAAGCAAATGGCCACTTTCAACTTCGCAAGCAATCAGT
CCTCAAGCAGATCTCATGGTACACTTGCCAAATATAAGAGAAGAGCATGTCAAATATATT
TCAGAACTGTCTCGATATAGCAATGAAGTTACAACAACATATACATATAAGGAAAATCAT
TCTGATTCAGAAAATCGAGCTGTATCAGATCTTGCTTTACGTGGCTTACAACTTTTATCT
GAGTGGACAAGTGTTGTAACAGAATTATATTCTTGGAAACTTTTACATCCAACTGATCAT
CATCAAAATAAAGAATGTCCTCCTGAAGCAGAAGAATATGAGCGTGCAACAAGATATAAT
TATAGTTCAGAAGAAAAATATGCATTGATTGAAGTAATTGCAATGATTAAAGGTCTTCAA
GTTTTAATGGCTCGTATGGAAACAGTTCTTTGTGACTCGATTCGTCGTAATATCTATGCT
GAATTACAAGATTTTGTCCAAGTTACATTACGAGAACCATTGCGAAAAGCTGTAAAAAAT
AAAAAAGATTTGATAAGATCTATTATTATGTCTGTTCGTGAAACATCAGCAGACTGGGCT
CGTGGTTGTGAGCCTCCCGATGATCCTGTTAACAAAGGCAAAAAAGATCCTGATAACGGA
TTCGCAATAAAAGTTCCACGTTTAAATGTCGGTCCAAGTTCAACACAACTCTACATGGTT
AGAACTATGCTCGAATCACTTATTGCAGATAAATCTGGTGGTAAGAGAACTTTAAGAAAA
GATATTGATGGTCCATGTCTTGTTCAAATAGATCAATTTCATAAAAATTCATTTTACTGG
ACTTATCTGATGAATTTTGGAGAAACACTACAAAAATGTTGCGATTTATCACAATTGTGG
TATCGTGAATTTTATTTAGAAATGACTATGGGGAGACGAGTGAAAAAATGCACTGTTCGT
CATCAGCATAACGAAGAATGCAATGATTTAATTACTATGGAAAAAAGGATTCAATTTCCT
ATTGAAATGTCAATGCCATGGATTTTGACAGATCACATTTTAAAAACAAAAGAACCTTCA
ATGATGGAATATGTTTTATATCCTCTAGATTTGTACAATGATTCAGCATTATATGCATTA
ACCATTTTTAGAAAACAATTTCTATACGACGAGGTAGAGGCTGAAGTAAATTTATGCTTC
GATCAATTCATTTTCAAACTCTCAGAACAGGTATTTGCCCACTATAAACAGCTAGCTGGA
AGTATTTTTCTTGACAAACGTTTCCGAGTGGAATGTGAAGTTCTCGGTTTCAATTTTCAA
TCATACCCTAAAAATAATCGATATTCGACACTACTCAAACAACGCCATGTGCAACTCCTT
GGACGCTCTATTGATTTAAACAAACTCATTTCACAGCGTATCAATGTTGATATGCAAAAA
AGTTTAGAATTGGCAATCAGTAGATTTGAAGCATCTGATATTACAGGTGTAGTTGAATTG
GAAGCTCTTTTGCAAGTTAACAGATTATGTCATAAACTATTAATAAAAGAAGGATTAGCG
CTTGACGATTTTGAATGTATGTTAAACGAAGCAAACCATAATGTTGTAGCTCCTTATGGT
AGAATCACCCTTCATGTTTTCGATGAACTCAACTACGATTTTCTATCAAATTATTGTTAC
AATGCAGCAACAAATCGTTTTGTTAGAAGCAAATTGCAAATTTCCGGTCAGCCCGTTGTT
CGTGAAAAACCACCCCAAATGTTTCATTACTTCCTGTGGGGTAGCAAACAACTCAATGCT
GCCTATTCAACTCAATTCGGACAATACACTGGTTTTGTCGGCACACCACATTTCCATGCT
ATTTGCAGACTTCTTGGTTATCAAGGAATTGCTGTTGTCATGGATATTATATTGAAAGAC
ATTGTTAAACCGCTTATTCAAGGGAATTTGTTGCAGTTTACAAAAACTCTTATGAATGCG
ATGCCTAAAGCATGTAAGCTACCACGATGCGATTATGGTTCACCAGGCGTTCTCGAATAT
TATCAAGCACATTTAATTGATATTGTTCAATATCCTGACGCAAAAACTGAATTTTTCCAA
CTATTTAGAGAAGTTGGAAATTCTATTCTCTTCTGTCTATTAATTGAGCAAGCTCTTTCA
CAAGAAGAAGTTTGCGATTTACTTCATGCAGCTCCCTTCCAAAATATTCTTCCAAGACCA
CATTGCAAGGAAGGTGAAAAGCCAGAAGCAAAGCAAAAACGACTCGAGCAGAAATTTGCT
TCATTACAAATTGTTCCAAATATTGAAAAGTTGGGAACAGCCAAACAATCACAAATAGCA
CGTGAAGGTGACTTATTGACAAGAGAACGTTTATGTTGTGGATTGAGTATTTTTGAAGTT
ATTCTACAAAAAGTTAAATCATATTTGGATGATGATATTTGGACTGGACCTAATCCTGCA
AATGGTGTAATGGCTATTGATGAGTGCTCTGAATTCCATAGATTATGGTCCGCTTTGCAG
TTTGTTTATTGTATTCCAGTCGCTGGAACAGAGTACACCGTTGAAGAACTTTTTGGAGAA
GGATTACATTGGGCAGGTTGTGCAATTATTACATTATTAAATCAACAAAGAAGATTTGAA
GCTCTTGATTTTTGCTATCATATATTAAGAGTGCAAAGAGTAGATGGTAAAGATGGTACT
GTAAAAGGTATTAATCTTAAAAGAATGGTTGATCGTATTCGAAGATTTCAAGTTTTGAAT
TCACAAATTTTTGCTATACTAAACAAATACATCAAAAATAGTGAAGGAGACTCAAATGTT
GAACATGTACGATGCTTTCCACCTCCAATTAGTCAACACGCCCAGAGTCGCAATCAAAAA
ATTTATGATTAA
>g11516.t1 Gene=g11516 Length=1283
MANERVTLADALSNVEILDERPLPDEQPLIEASTCSITYQANFDTNFEDRNGFVTGIAKY
IEEATTHANLNILLEEGQKHAVMLYTWRCCSRAIPQPKSNEQPNRVEIYEKTVEVLAPEV
NKLLNFMYFQKKAIEVFSAEVKRLCHAEKRKDFVSEAYLLTLGKFINMFAVLDELKNMKS
SVKNDYSTYRRAAQFLKVMSDSHTLQESQNLSMFLATQNKIRDTVKDTLEKIPGFEELIC
EVVNICVHMFEQKMFLTPEEKHMLVKVCGFGLFLMDSEMCNINKLDQKKKLRLDRIDRIF
KNLEVVPLFGDMQINPFNYVRKSKHFDASKWPLSTSQAISPQADLMVHLPNIREEHVKYI
SELSRYSNEVTTTYTYKENHSDSENRAVSDLALRGLQLLSEWTSVVTELYSWKLLHPTDH
HQNKECPPEAEEYERATRYNYSSEEKYALIEVIAMIKGLQVLMARMETVLCDSIRRNIYA
ELQDFVQVTLREPLRKAVKNKKDLIRSIIMSVRETSADWARGCEPPDDPVNKGKKDPDNG
FAIKVPRLNVGPSSTQLYMVRTMLESLIADKSGGKRTLRKDIDGPCLVQIDQFHKNSFYW
TYLMNFGETLQKCCDLSQLWYREFYLEMTMGRRVKKCTVRHQHNEECNDLITMEKRIQFP
IEMSMPWILTDHILKTKEPSMMEYVLYPLDLYNDSALYALTIFRKQFLYDEVEAEVNLCF
DQFIFKLSEQVFAHYKQLAGSIFLDKRFRVECEVLGFNFQSYPKNNRYSTLLKQRHVQLL
GRSIDLNKLISQRINVDMQKSLELAISRFEASDITGVVELEALLQVNRLCHKLLIKEGLA
LDDFECMLNEANHNVVAPYGRITLHVFDELNYDFLSNYCYNAATNRFVRSKLQISGQPVV
REKPPQMFHYFLWGSKQLNAAYSTQFGQYTGFVGTPHFHAICRLLGYQGIAVVMDIILKD
IVKPLIQGNLLQFTKTLMNAMPKACKLPRCDYGSPGVLEYYQAHLIDIVQYPDAKTEFFQ
LFREVGNSILFCLLIEQALSQEEVCDLLHAAPFQNILPRPHCKEGEKPEAKQKRLEQKFA
SLQIVPNIEKLGTAKQSQIAREGDLLTRERLCCGLSIFEVILQKVKSYLDDDIWTGPNPA
NGVMAIDECSEFHRLWSALQFVYCIPVAGTEYTVEELFGEGLHWAGCAIITLLNQQRRFE
ALDFCYHILRVQRVDGKDGTVKGINLKRMVDRIRRFQVLNSQIFAILNKYIKNSEGDSNV
EHVRCFPPPISQHAQSRNQKIYD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g11516.t1 | Coils | Coil | Coil | 172 | 192 | - |
| 3 | g11516.t1 | PANTHER | PTHR12195:SF2 | CYTOPLASMIC FMR1-INTERACTING PROTEIN 1 | 3 | 1275 | 0.0 |
| 4 | g11516.t1 | PANTHER | PTHR12195 | CYTOPLASMIC FMR1-INTERACTING PROTEIN-RELATED | 3 | 1275 | 0.0 |
| 18 | g11516.t1 | PIRSF | PIRSF008153 | CYFIP | 2 | 1281 | 0.0 |
| 10 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 45 | 62 | 3.5E-142 |
| 9 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 100 | 116 | 3.5E-142 |
| 12 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 140 | 169 | 3.5E-142 |
| 13 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 261 | 276 | 3.5E-142 |
| 5 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 430 | 448 | 3.5E-142 |
| 11 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 550 | 573 | 3.5E-142 |
| 8 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 613 | 631 | 3.5E-142 |
| 14 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 705 | 727 | 3.5E-142 |
| 7 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 766 | 796 | 3.5E-142 |
| 16 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 1105 | 1129 | 3.5E-142 |
| 15 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 1151 | 1167 | 3.5E-142 |
| 6 | g11516.t1 | PRINTS | PR01698 | Cytoplasmic fragile X mental retardation protein interacting protein signature | 1226 | 1240 | 3.5E-142 |
| 2 | g11516.t1 | Pfam | PF07159 | Protein of unknown function (DUF1394) | 62 | 268 | 1.7E-10 |
| 1 | g11516.t1 | Pfam | PF05994 | Cytoplasmic Fragile-X interacting family | 388 | 1247 | 0.0 |
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:0031267 | small GTPase binding | MF |
| GO:0030833 | regulation of actin filament polymerization | BP |
KEGG
Orthology
- This transcript has been annotated with K05749 (cytoplasmic FMR1 interacting 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.
