General information for g2860.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as IQ motif and SEC7 domain-containing protein 1.
Parent gene
- The parent gene g2860 is located on chr_3: 20731829..20732803 (- 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 | g2860 | g2860.t2 | TTS | g2860.t2 | 20723856 | 20723856 |
| chr_3 | g2860 | g2860.t2 | isoform | g2860.t2 | 20724536 | 20728166 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon1 | 20724536 | 20724726 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS1 | 20724536 | 20724726 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon2 | 20724791 | 20725126 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS2 | 20724791 | 20725126 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon3 | 20725181 | 20725358 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS3 | 20725181 | 20725358 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon4 | 20725460 | 20725549 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS4 | 20725460 | 20725549 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon5 | 20725624 | 20725833 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS5 | 20725624 | 20725833 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon6 | 20725916 | 20726487 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS6 | 20725916 | 20726487 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon7 | 20726564 | 20727272 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS7 | 20726564 | 20727272 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon8 | 20727360 | 20727732 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS8 | 20727360 | 20727732 |
| chr_3 | g2860 | g2860.t2 | exon | g2860.t2.exon9 | 20727919 | 20728166 |
| chr_3 | g2860 | g2860.t2 | cds | g2860.t2.CDS9 | 20727919 | 20728166 |
| chr_3 | g2860 | g2860.t2 | TSS | g2860.t2 | NA | NA |
Sequences
>g2860.t2 Gene=g2860 Length=2907
ATGTCAAAACATTCTATAAAGTCTTCTTTATCAATGGCAAACGACACGGCGAGTGTCATT
AGTGAAAGTCGTAGTGCCTCAAGCAGAAAGTCTATGATTGTATATCTCGATGAAAATGGA
AATCAATGCAAAGAACCGCGAGTTCGAAAAGTTGTTGGCACTCAAGCGCGACATGTCACG
GTTATTAATTATTCACGACGTCACAGAGAATCCCATTCTAGAACGCAACATCATGTCACA
ACTGTGAGTTTTCCACAGCAGCGGTTGGATCGTTCTCTGACAAGCGCCTATTCCTATTCA
CCTTATTCTATGAATTATCAAACAAGTGATGCACAAAGCTATCAAAGCAGCAGTACACCA
AGTTATTTGCAAGCAGCTGCATATTCGCCACAATTTCATAATAATATTCCATCGCCAAAT
TTTATTATCACATCACCGCAGCATTTTAGTCATGCGACAAAGACTAATTCAATTAGATAC
GGATCGAATAGTGAGTTAAATAAACGAACGTCTCGCAATCAAAGCCATGGCTATGAATTA
TCGCAAGACTTGATGGATAAACAAATGGAATTGTTGGAAAGAAAATATGGAGGAAAAATT
CGAGCACAGCGTGCTGCATTGGTCATCCAAAGAGCATTTCGGCGTTATATGTTGAATAAA
AAATTTGCATCAATCCGTGCTACAGCGAATGTGAAAACTGAGAAGCGAAGCTCAATTGCT
AGCAGTAGTATGACGAGTTCTATAAATCAACGACTCTCCCAAAGCCAATCAATGGAAATG
TACGGAATAAATTATCAACAACAGCATCAACTTCAAAATAATGAACAACGATCACCAGCA
ACTATCAATGCTCCATATGATCAACGTACTCTTATGAGTCCAAATTCACCTCAGTTACGT
AATTCAATAATTTTGAAATCACCTGCACATCCATATGTCAATTTGATGCATCAGCAATAT
TCTGCTGGTAGTCCAACAATCACACATCAACATTTACAATATCAAAATAGCAATAATAGC
AGCACAATTTCATTTGGTAGTCCCATATTCTTGGATGCATCAAATACTACACCAAATCAA
TCATGGAATTCATTAAATTCAACACCTTCAAGTCCATTGGTGACACATTATACAGCATCA
CAAATTTACATGCGTCCAAAAAATATGCAATATCAACAGCAGCAATCGCAACAACAACAA
CCTTCTCCACAGCATGTTCATTCATCGCCAATGGCAACACACAAAAAACAGCCACCAGAA
GTACCAAAACGAATGACAAGTGCCGTGTCAACGGGGTCATTGAAAAAATCCAATGGACTA
TCGAGATCAGCAAACAATGGAAGTCTACAGTCAGTTCAGTCATCGGGTAGTGAGAGTAGT
GCATCATTGGAGAAAATGCATTATGAAAACCTAACAGAGCGAGGAACATCGCCACTTTGG
AAACACAAAAACGATGATGATGATCAATCACATCGAAAAAACGCTGCAAATGAGAATTAC
AAATATTCTGAAATCATACGTAAACGAAAATACCGTCTTGGTCTAAATTTATTCAATAAG
AAACCAGAGAAAGGCATTGAATTTTTGGTGAAAAATGGTTTTCTCGATAATACACATTCA
GGTGTTGCCAAATTCCTGATCTCACGAAAAGGTTTATCGCGTCAAATGATTGGCGAATAT
TTGGGAATGATTCAGAATTCTTTCAATATGGCAGTTCTTGATGCATTCTGTGATGAATTG
GATTTAAGTGGTATGGCTGTGGATGTTGCATTACGAAAATTCCAAAGTTATTTTCGAATG
CCAGGCGAGGCACAAAAAATTGAAAGGCTTATACAAGCATTTAGTCATCGCTATGCAAAA
TGTAATCCGGAAGTTGTGGGAAAACTTCGCTCATCGGAAACTATATTCATACTAGCTTTT
GCAATTATAATGCTAAATACTGATTTACATACACAAGCACTAAAACCAGAAAAGCGAATG
CGATGTGAAGATTTTATAAAAAATTTACGCGGTGTTGATGATTGTTCGGACATTGATAGA
GATATTCTTGTGGGAATATATGAGCGAATTAAAGTGAACGAATTCAAACCAGCATCAGAT
CATGTGACTCAAGTTATGAAGGTACAAGCGACAATCATTGGTAAAAAACCCAATTTGGCA
TTGCCACATCGACGCTTAGTTTGTTATTGTCGGCTATATGAAGTGCCGGATTTAAATCGT
AAAGAACGGCCTGGCGTTCATCAACGAGAAGTGTTTCTATTCAACGACATTTTAGTGATC
ACAAAAATATTTAAAAAGATTTCTAAAACTTCCGTGACTTATTCATTCCGTACAAGTTAT
GCATTACCTGGAATGGTCGTTACATTATTGAAATCTTCAAATTATCCTCATGCAATACAA
CTTTCAAATAGAGTTGATAATAAAGTGCTTATAACATTTAATGCACGAAATGAACATGAT
AGATGCAAATTTGCTCAAGATTTAGAAGAGAGCATCGCTGAAATGGATGAAATGGAACAA
ATACGAATAGAGTCAGAATTAGAAAAACAGAAAAATTCGAGGAATTCAAGAAATTCAAAA
TCTACTTCGAGTGAACATCATCGTGATAGCGGCTATGCTGAAATTAAACACAAACATAAA
ACAAAATCATCTCCTACAGCAAATCACGCACAAAATAATAAACTTAGCAATTCTCTGTTA
AATATCAATGAACAATTTACCGGTGATAATAAATATGATAAAAATAGACGTGCATCAGTT
TGTTCATTAGACAGTGGAACATCACTATCGTTTTTATCTTCAAATGGAACAAGAGCTAGT
GATAACAATAATAATGTCAATAATAAACCTCCAACAACACAAAAATTAATTCTCATGCCA
AATTCACCGAGATCAACAGAGGTCTAA
>g2860.t2 Gene=g2860 Length=968
MSKHSIKSSLSMANDTASVISESRSASSRKSMIVYLDENGNQCKEPRVRKVVGTQARHVT
VINYSRRHRESHSRTQHHVTTVSFPQQRLDRSLTSAYSYSPYSMNYQTSDAQSYQSSSTP
SYLQAAAYSPQFHNNIPSPNFIITSPQHFSHATKTNSIRYGSNSELNKRTSRNQSHGYEL
SQDLMDKQMELLERKYGGKIRAQRAALVIQRAFRRYMLNKKFASIRATANVKTEKRSSIA
SSSMTSSINQRLSQSQSMEMYGINYQQQHQLQNNEQRSPATINAPYDQRTLMSPNSPQLR
NSIILKSPAHPYVNLMHQQYSAGSPTITHQHLQYQNSNNSSTISFGSPIFLDASNTTPNQ
SWNSLNSTPSSPLVTHYTASQIYMRPKNMQYQQQQSQQQQPSPQHVHSSPMATHKKQPPE
VPKRMTSAVSTGSLKKSNGLSRSANNGSLQSVQSSGSESSASLEKMHYENLTERGTSPLW
KHKNDDDDQSHRKNAANENYKYSEIIRKRKYRLGLNLFNKKPEKGIEFLVKNGFLDNTHS
GVAKFLISRKGLSRQMIGEYLGMIQNSFNMAVLDAFCDELDLSGMAVDVALRKFQSYFRM
PGEAQKIERLIQAFSHRYAKCNPEVVGKLRSSETIFILAFAIIMLNTDLHTQALKPEKRM
RCEDFIKNLRGVDDCSDIDRDILVGIYERIKVNEFKPASDHVTQVMKVQATIIGKKPNLA
LPHRRLVCYCRLYEVPDLNRKERPGVHQREVFLFNDILVITKIFKKISKTSVTYSFRTSY
ALPGMVVTLLKSSNYPHAIQLSNRVDNKVLITFNARNEHDRCKFAQDLEESIAEMDEMEQ
IRIESELEKQKNSRNSRNSKSTSSEHHRDSGYAEIKHKHKTKSSPTANHAQNNKLSNSLL
NINEQFTGDNKYDKNRRASVCSLDSGTSLSFLSSNGTRASDNNNNVNNKPPTTQKLILMP
NSPRSTEV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g2860.t2 | CDD | cd00171 | Sec7 | 507 | 695 | 3.75399E-72 |
| 12 | g2860.t2 | CDD | cd13318 | PH_IQSEC | 722 | 850 | 3.76217E-71 |
| 10 | g2860.t2 | Coils | Coil | Coil | 828 | 848 | - |
| 9 | g2860.t2 | Gene3D | G3DSA:1.10.220.20 | - | 487 | 581 | 7.5E-32 |
| 8 | g2860.t2 | Gene3D | G3DSA:1.10.1000.11 | - | 582 | 698 | 2.1E-42 |
| 7 | g2860.t2 | Gene3D | G3DSA:2.30.29.30 | - | 715 | 851 | 2.5E-54 |
| 15 | g2860.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 66 | 85 | - |
| 14 | g2860.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 388 | 495 | - |
| 21 | g2860.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 388 | 411 | - |
| 17 | g2860.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 424 | 466 | - |
| 18 | g2860.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 467 | 495 | - |
| 16 | g2860.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 846 | 893 | - |
| 19 | g2860.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 846 | 881 | - |
| 20 | g2860.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 934 | 954 | - |
| 3 | g2860.t2 | PANTHER | PTHR10663:SF342 | FI21420P1 | 171 | 937 | 2.6E-200 |
| 4 | g2860.t2 | PANTHER | PTHR10663 | GUANYL-NUCLEOTIDE EXCHANGE FACTOR | 171 | 937 | 2.6E-200 |
| 1 | g2860.t2 | Pfam | PF01369 | Sec7 domain | 507 | 695 | 8.0E-60 |
| 2 | g2860.t2 | Pfam | PF16453 | PH domain | 715 | 850 | 4.3E-61 |
| 22 | g2860.t2 | ProSiteProfiles | PS50096 | IQ motif profile. | 202 | 230 | 6.961 |
| 23 | g2860.t2 | ProSiteProfiles | PS50190 | SEC7 domain profile. | 507 | 693 | 38.981 |
| 13 | g2860.t2 | SMART | SM00222 | sec7_5 | 504 | 695 | 8.4E-76 |
| 6 | g2860.t2 | SUPERFAMILY | SSF48425 | Sec7 domain | 507 | 700 | 3.53E-63 |
| 5 | g2860.t2 | SUPERFAMILY | SSF50729 | PH domain-like | 704 | 839 | 2.09E-17 |
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 |
| GO:0032012 | regulation of ARF protein signal transduction | BP |
| GO:0005085 | guanyl-nucleotide exchange factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K12495 (IQ motif and SEC7 domain-containing 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.
