General information for g2860.t1
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.t1 | TTS | g2860.t1 | 20723856 | 20723856 |
| chr_3 | g2860 | g2860.t1 | isoform | g2860.t1 | 20724536 | 20732803 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon1 | 20724536 | 20724726 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS1 | 20724536 | 20724726 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon2 | 20724791 | 20725126 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS2 | 20724791 | 20725126 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon3 | 20725181 | 20725358 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS3 | 20725181 | 20725358 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon4 | 20725460 | 20725549 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS4 | 20725460 | 20725549 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon5 | 20725624 | 20725833 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS5 | 20725624 | 20725833 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon6 | 20725916 | 20726487 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS6 | 20725916 | 20726487 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon7 | 20726564 | 20727272 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS7 | 20726564 | 20727272 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon8 | 20727360 | 20727732 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS8 | 20727360 | 20727732 |
| chr_3 | g2860 | g2860.t1 | exon | g2860.t1.exon9 | 20732529 | 20732803 |
| chr_3 | g2860 | g2860.t1 | cds | g2860.t1.CDS9 | 20732529 | 20732803 |
| chr_3 | g2860 | g2860.t1 | TSS | g2860.t1 | 20733106 | 20733106 |
Sequences
>g2860.t1 Gene=g2860 Length=2934
ATGTATCAATCGGAAATATTCTATGCGGAAGCATCAGGCAACGATAAAAACATGATGCAA
ATTAAAGATCACTGCATAAGCCCCATCGTTGTCGGTGGTGGTACAAATGCAAACTTAGAT
ATCAACTATGTGAATTTAGTGCGTGAGAATTTTGATTTACGTGAGAGAAATAATCAGTTG
ATAAAGTTCAATAATCAACTAATGATTGAAATAAGTCAATTAAAGTTAGAAATTGAAATG
TTGGAATTAAAAAAGGCTCTTTCGCAAGAAGATAGTTTTCCACAGCAGCGGTTGGATCGT
TCTCTGACAAGCGCCTATTCCTATTCACCTTATTCTATGAATTATCAAACAAGTGATGCA
CAAAGCTATCAAAGCAGCAGTACACCAAGTTATTTGCAAGCAGCTGCATATTCGCCACAA
TTTCATAATAATATTCCATCGCCAAATTTTATTATCACATCACCGCAGCATTTTAGTCAT
GCGACAAAGACTAATTCAATTAGATACGGATCGAATAGTGAGTTAAATAAACGAACGTCT
CGCAATCAAAGCCATGGCTATGAATTATCGCAAGACTTGATGGATAAACAAATGGAATTG
TTGGAAAGAAAATATGGAGGAAAAATTCGAGCACAGCGTGCTGCATTGGTCATCCAAAGA
GCATTTCGGCGTTATATGTTGAATAAAAAATTTGCATCAATCCGTGCTACAGCGAATGTG
AAAACTGAGAAGCGAAGCTCAATTGCTAGCAGTAGTATGACGAGTTCTATAAATCAACGA
CTCTCCCAAAGCCAATCAATGGAAATGTACGGAATAAATTATCAACAACAGCATCAACTT
CAAAATAATGAACAACGATCACCAGCAACTATCAATGCTCCATATGATCAACGTACTCTT
ATGAGTCCAAATTCACCTCAGTTACGTAATTCAATAATTTTGAAATCACCTGCACATCCA
TATGTCAATTTGATGCATCAGCAATATTCTGCTGGTAGTCCAACAATCACACATCAACAT
TTACAATATCAAAATAGCAATAATAGCAGCACAATTTCATTTGGTAGTCCCATATTCTTG
GATGCATCAAATACTACACCAAATCAATCATGGAATTCATTAAATTCAACACCTTCAAGT
CCATTGGTGACACATTATACAGCATCACAAATTTACATGCGTCCAAAAAATATGCAATAT
CAACAGCAGCAATCGCAACAACAACAACCTTCTCCACAGCATGTTCATTCATCGCCAATG
GCAACACACAAAAAACAGCCACCAGAAGTACCAAAACGAATGACAAGTGCCGTGTCAACG
GGGTCATTGAAAAAATCCAATGGACTATCGAGATCAGCAAACAATGGAAGTCTACAGTCA
GTTCAGTCATCGGGTAGTGAGAGTAGTGCATCATTGGAGAAAATGCATTATGAAAACCTA
ACAGAGCGAGGAACATCGCCACTTTGGAAACACAAAAACGATGATGATGATCAATCACAT
CGAAAAAACGCTGCAAATGAGAATTACAAATATTCTGAAATCATACGTAAACGAAAATAC
CGTCTTGGTCTAAATTTATTCAATAAGAAACCAGAGAAAGGCATTGAATTTTTGGTGAAA
AATGGTTTTCTCGATAATACACATTCAGGTGTTGCCAAATTCCTGATCTCACGAAAAGGT
TTATCGCGTCAAATGATTGGCGAATATTTGGGAATGATTCAGAATTCTTTCAATATGGCA
GTTCTTGATGCATTCTGTGATGAATTGGATTTAAGTGGTATGGCTGTGGATGTTGCATTA
CGAAAATTCCAAAGTTATTTTCGAATGCCAGGCGAGGCACAAAAAATTGAAAGGCTTATA
CAAGCATTTAGTCATCGCTATGCAAAATGTAATCCGGAAGTTGTGGGAAAACTTCGCTCA
TCGGAAACTATATTCATACTAGCTTTTGCAATTATAATGCTAAATACTGATTTACATACA
CAAGCACTAAAACCAGAAAAGCGAATGCGATGTGAAGATTTTATAAAAAATTTACGCGGT
GTTGATGATTGTTCGGACATTGATAGAGATATTCTTGTGGGAATATATGAGCGAATTAAA
GTGAACGAATTCAAACCAGCATCAGATCATGTGACTCAAGTTATGAAGGTACAAGCGACA
ATCATTGGTAAAAAACCCAATTTGGCATTGCCACATCGACGCTTAGTTTGTTATTGTCGG
CTATATGAAGTGCCGGATTTAAATCGTAAAGAACGGCCTGGCGTTCATCAACGAGAAGTG
TTTCTATTCAACGACATTTTAGTGATCACAAAAATATTTAAAAAGATTTCTAAAACTTCC
GTGACTTATTCATTCCGTACAAGTTATGCATTACCTGGAATGGTCGTTACATTATTGAAA
TCTTCAAATTATCCTCATGCAATACAACTTTCAAATAGAGTTGATAATAAAGTGCTTATA
ACATTTAATGCACGAAATGAACATGATAGATGCAAATTTGCTCAAGATTTAGAAGAGAGC
ATCGCTGAAATGGATGAAATGGAACAAATACGAATAGAGTCAGAATTAGAAAAACAGAAA
AATTCGAGGAATTCAAGAAATTCAAAATCTACTTCGAGTGAACATCATCGTGATAGCGGC
TATGCTGAAATTAAACACAAACATAAAACAAAATCATCTCCTACAGCAAATCACGCACAA
AATAATAAACTTAGCAATTCTCTGTTAAATATCAATGAACAATTTACCGGTGATAATAAA
TATGATAAAAATAGACGTGCATCAGTTTGTTCATTAGACAGTGGAACATCACTATCGTTT
TTATCTTCAAATGGAACAAGAGCTAGTGATAACAATAATAATGTCAATAATAAACCTCCA
ACAACACAAAAATTAATTCTCATGCCAAATTCACCGAGATCAACAGAGGTCTAA
>g2860.t1 Gene=g2860 Length=977
MYQSEIFYAEASGNDKNMMQIKDHCISPIVVGGGTNANLDINYVNLVRENFDLRERNNQL
IKFNNQLMIEISQLKLEIEMLELKKALSQEDSFPQQRLDRSLTSAYSYSPYSMNYQTSDA
QSYQSSSTPSYLQAAAYSPQFHNNIPSPNFIITSPQHFSHATKTNSIRYGSNSELNKRTS
RNQSHGYELSQDLMDKQMELLERKYGGKIRAQRAALVIQRAFRRYMLNKKFASIRATANV
KTEKRSSIASSSMTSSINQRLSQSQSMEMYGINYQQQHQLQNNEQRSPATINAPYDQRTL
MSPNSPQLRNSIILKSPAHPYVNLMHQQYSAGSPTITHQHLQYQNSNNSSTISFGSPIFL
DASNTTPNQSWNSLNSTPSSPLVTHYTASQIYMRPKNMQYQQQQSQQQQPSPQHVHSSPM
ATHKKQPPEVPKRMTSAVSTGSLKKSNGLSRSANNGSLQSVQSSGSESSASLEKMHYENL
TERGTSPLWKHKNDDDDQSHRKNAANENYKYSEIIRKRKYRLGLNLFNKKPEKGIEFLVK
NGFLDNTHSGVAKFLISRKGLSRQMIGEYLGMIQNSFNMAVLDAFCDELDLSGMAVDVAL
RKFQSYFRMPGEAQKIERLIQAFSHRYAKCNPEVVGKLRSSETIFILAFAIIMLNTDLHT
QALKPEKRMRCEDFIKNLRGVDDCSDIDRDILVGIYERIKVNEFKPASDHVTQVMKVQAT
IIGKKPNLALPHRRLVCYCRLYEVPDLNRKERPGVHQREVFLFNDILVITKIFKKISKTS
VTYSFRTSYALPGMVVTLLKSSNYPHAIQLSNRVDNKVLITFNARNEHDRCKFAQDLEES
IAEMDEMEQIRIESELEKQKNSRNSRNSKSTSSEHHRDSGYAEIKHKHKTKSSPTANHAQ
NNKLSNSLLNINEQFTGDNKYDKNRRASVCSLDSGTSLSFLSSNGTRASDNNNNVNNKPP
TTQKLILMPNSPRSTEV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g2860.t1 | CDD | cd00171 | Sec7 | 516 | 704 | 4.54365E-71 |
| 13 | g2860.t1 | CDD | cd13318 | PH_IQSEC | 731 | 859 | 2.63353E-71 |
| 10 | g2860.t1 | Coils | Coil | Coil | 64 | 91 | - |
| 11 | g2860.t1 | Coils | Coil | Coil | 837 | 857 | - |
| 9 | g2860.t1 | Gene3D | G3DSA:1.10.220.20 | - | 496 | 590 | 7.6E-32 |
| 8 | g2860.t1 | Gene3D | G3DSA:1.10.1000.11 | - | 591 | 707 | 2.1E-42 |
| 7 | g2860.t1 | Gene3D | G3DSA:2.30.29.30 | - | 724 | 860 | 2.6E-54 |
| 16 | g2860.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 397 | 420 | - |
| 21 | g2860.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 397 | 504 | - |
| 17 | g2860.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 433 | 475 | - |
| 20 | g2860.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 476 | 504 | - |
| 18 | g2860.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 855 | 902 | - |
| 19 | g2860.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 855 | 890 | - |
| 15 | g2860.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 943 | 962 | - |
| 3 | g2860.t1 | PANTHER | PTHR10663:SF342 | FI21420P1 | 180 | 946 | 1.0E-200 |
| 4 | g2860.t1 | PANTHER | PTHR10663 | GUANYL-NUCLEOTIDE EXCHANGE FACTOR | 180 | 946 | 1.0E-200 |
| 1 | g2860.t1 | Pfam | PF01369 | Sec7 domain | 516 | 704 | 8.1E-60 |
| 2 | g2860.t1 | Pfam | PF16453 | PH domain | 724 | 859 | 4.3E-61 |
| 22 | g2860.t1 | ProSiteProfiles | PS50096 | IQ motif profile. | 211 | 239 | 6.961 |
| 23 | g2860.t1 | ProSiteProfiles | PS50190 | SEC7 domain profile. | 516 | 702 | 38.981 |
| 14 | g2860.t1 | SMART | SM00222 | sec7_5 | 513 | 704 | 8.4E-76 |
| 6 | g2860.t1 | SUPERFAMILY | SSF48425 | Sec7 domain | 516 | 709 | 3.66E-63 |
| 5 | g2860.t1 | SUPERFAMILY | SSF50729 | PH domain-like | 713 | 848 | 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.
