General information for g10989.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative GRIP and coiled-coil domain-containing protein 2.
Parent gene
- The parent gene g10989 is located on chr_1: 13200006..13200913 (- 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 | g10989 | g10989.t1 | TTS | g10989.t1 | 13198145 | 13198145 |
| chr_1 | g10989 | g10989.t1 | isoform | g10989.t1 | 13198238 | 13200913 |
| chr_1 | g10989 | g10989.t1 | exon | g10989.t1.exon1 | 13198238 | 13200633 |
| chr_1 | g10989 | g10989.t1 | cds | g10989.t1.CDS1 | 13198238 | 13200633 |
| chr_1 | g10989 | g10989.t1 | exon | g10989.t1.exon2 | 13200711 | 13200819 |
| chr_1 | g10989 | g10989.t1 | cds | g10989.t1.CDS2 | 13200711 | 13200819 |
| chr_1 | g10989 | g10989.t1 | exon | g10989.t1.exon3 | 13200875 | 13200913 |
| chr_1 | g10989 | g10989.t1 | cds | g10989.t1.CDS3 | 13200875 | 13200913 |
| chr_1 | g10989 | g10989.t1 | TSS | g10989.t1 | NA | NA |
Sequences
>g10989.t1 Gene=g10989 Length=2544
ATGGATGAAAGTGTCACAAGTATTTCCTCTCAATCACAGGAGAAGAAAAACACATCATCT
TCATTAGAAGAACTTTCAAAAGAAGAGCTAATAACGAAATGCAATAAACTTTTGGTGATA
GCTAGAAAAGCAAAATCCTCAAAAGATGAATTAGCGGAAGAAAATAAACGAATAAAAGAA
GAGATTAAGAAACTAGAGGAGCAAAATGCAGCTTCACAAGTTTTGCAAGAACTCGTAGAG
AGTCTTACACAAAATAAATTAGCAAGTGCAACACAAATATCAGAATTGAGCAAACAAATT
TCAGATAAAGACGTGTCAATTAAACAACTACAATCAAAATTTGATGAGCTCATTATAGAA
AATGAAGCACTTAAGCGACAAACACAAAGGCTAACAGACGAAAATGATTCTTTATTAGTC
GACATGCAATCTATTGATTTTAAAAATGAAGTCGATGATTTATCATTGAAAATTAAAACT
TTAAATGAAGAATTATCAGAATTGAAGTTGAAATATGATGATAAATGTAGCGAAAATTTG
GAGTTAAAAGCTTCAATAGAATCTAACAATGCACCATCAGACGAAATTAAAATTCGTTAT
GACAAAACTCTTAAGAAAATGAAAGCATATCGGGAAAAATTGTTTGAAATCTATGAACAG
GCTAAAATTATAAAGAATGAAAAGGGTACTCTTTTGAAGATGACTAAAGAGTATGGAGAA
TATGTTAACAAATGGCAAAAAGATATTGCTAATGCATCAACAAGACTTGTAATTCAAATA
AAAGAATTGAATTTAGAAATTAAAAGTAAAGATGAAGAAATTAAACGACTTGAAGAGTCA
CTTGAGAAAGCAAGTAAAAATTCAATGACAAATGAGAGTGTTGAAAAATATGAAGAAGAA
ATTAAATTACTTAAAGAAGCAATATTAACGAAAGATAAAATGTTAGATGAGGAACGAGAG
GCACAAAAAAAATTAAAACAAGCAGTAAAGAAACCAAGTGTACTCGACTTAGAATTGGTT
GATCTTGAGAAAACTTTGGAAGAGCTCAATAGAAAATTAGAAGTAAAAAAGAAACAAGTA
TTAGAGCTAGAAAGTACTATAAATGTTCAAAATGAGACAATAAATTCCTTCAAGAGTCAA
ATTTCGTCATTAGAGGAGAATTTAGAGTCAGAAAAGGCACATTCTATAGAAATTAAAAAG
AACCTTGACTGTCAATTAAACTTGTTACGAACAACTGAGCACGAAAGAACTGAATCAAAT
TTGCAACTGGATTTGCTTAATAAAAATTATGAGAGCCTTAAATTAGAAAATGCTGAAACT
AAAATGGAAATGGCCAAAACCATTGGTGAAATGGAAAAAAGACATCAGACATTAGAAATT
GAAAGAAATGATTTACTTAAAAATATCAGTTTTCTTGAAAATGAAGTTGAAAAATACAAG
AAATTGTCATTAAATCATGAAAAAGAAACTGAAACTATAAGAACAGAATTTGCTAGCTAC
AAAATACGTGCTCAAAGTGTTCTTCGTCAGAACCAAAAAACAGACTTTAGTCGAGAACAA
GAATTACAAGATGAAGTCATATCATTGCAAAAATCTTTAGAAAATATAAAAGAGGCAAAT
CAAAAATATACAAGCGAATTAGAAACTCTTAAAAAGACCTACAATGACTTAGTTGAAAAC
AATTCAAATCTACAAACACGATATAAAAATCTACTAACCACATTTGAAAAGCAAAGTGAT
GAAGTGTTAGAAGAGTCACGCAAGAGAAATTTAGAATATGATGAATCAATAAAGAGGTAT
CAATTGCAAATTGATACTCTAAATGTCTTTTATAAAAAGCATATTCAAGACCTAGAAGAG
TCAAAGAAAAATGCAGTCCAAGAATTGCAAGAGAAAATTTCAAACTATGAAAAAATGTCC
ATTTCAAATACGAATGCTGAAGTTCAAAATTCTGAGCCAAGTTCACTGCCTAAAACGGAT
GATCAGAAAATTTGCACAATGCTTGACTTAATGGATAGAGAAGTGGAAGGAAGTGAAGAC
CAATCATCACAATCAACTACTTTCACAAATTTCCACATACGTCGAAAGATTTCTCGTGGT
AGAGAATTGATGCCACTTGATGAACTTCTTAATTCTTCTTTCGATGACAACTCAAACGAG
GTTAATGATGAAACAATGTCAAATTATTCATCACCATCTGAATTGCTTGAGCATGTTCGT
GCTAAATTGCAAAAAGAAGAAAATCGTGTGCAACATCTTACCACACTACTTGCAGATTCT
GAAAAAGATTTGGCTCGAATGCAGCAATTGAATGAAATGCTGAAAGAAGAAGTTCGACGA
ACACAAAGGTCAATTGAACGTGAAGAGCATGTTAAAAATTCCGAATATTTGAAAAATGTT
GTCATGAAATTTGTTACCCTTAATAATGGAGATGAAAAGCAACGTTTAATACCAGTCCTA
AATACAATTCTAAAATTAAGTTCAGATGAAATTCAGACATTGCAAAATGCTTGCAAGGGA
GGATGGTCATCATTATGGAATTAA
>g10989.t1 Gene=g10989 Length=847
MDESVTSISSQSQEKKNTSSSLEELSKEELITKCNKLLVIARKAKSSKDELAEENKRIKE
EIKKLEEQNAASQVLQELVESLTQNKLASATQISELSKQISDKDVSIKQLQSKFDELIIE
NEALKRQTQRLTDENDSLLVDMQSIDFKNEVDDLSLKIKTLNEELSELKLKYDDKCSENL
ELKASIESNNAPSDEIKIRYDKTLKKMKAYREKLFEIYEQAKIIKNEKGTLLKMTKEYGE
YVNKWQKDIANASTRLVIQIKELNLEIKSKDEEIKRLEESLEKASKNSMTNESVEKYEEE
IKLLKEAILTKDKMLDEEREAQKKLKQAVKKPSVLDLELVDLEKTLEELNRKLEVKKKQV
LELESTINVQNETINSFKSQISSLEENLESEKAHSIEIKKNLDCQLNLLRTTEHERTESN
LQLDLLNKNYESLKLENAETKMEMAKTIGEMEKRHQTLEIERNDLLKNISFLENEVEKYK
KLSLNHEKETETIRTEFASYKIRAQSVLRQNQKTDFSREQELQDEVISLQKSLENIKEAN
QKYTSELETLKKTYNDLVENNSNLQTRYKNLLTTFEKQSDEVLEESRKRNLEYDESIKRY
QLQIDTLNVFYKKHIQDLEESKKNAVQELQEKISNYEKMSISNTNAEVQNSEPSSLPKTD
DQKICTMLDLMDREVEGSEDQSSQSTTFTNFHIRRKISRGRELMPLDELLNSSFDDNSNE
VNDETMSNYSSPSELLEHVRAKLQKEENRVQHLTTLLADSEKDLARMQQLNEMLKEEVRR
TQRSIEREEHVKNSEYLKNVVMKFVTLNNGDEKQRLIPVLNTILKLSSDEIQTLQNACKG
GWSSLWN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g10989.t1 | Coils | Coil | Coil | 8 | 28 | - |
| 15 | g10989.t1 | Coils | Coil | Coil | 41 | 85 | - |
| 18 | g10989.t1 | Coils | Coil | Coil | 93 | 141 | - |
| 16 | g10989.t1 | Coils | Coil | Coil | 144 | 178 | - |
| 10 | g10989.t1 | Coils | Coil | Coil | 260 | 331 | - |
| 12 | g10989.t1 | Coils | Coil | Coil | 339 | 394 | - |
| 19 | g10989.t1 | Coils | Coil | Coil | 416 | 443 | - |
| 20 | g10989.t1 | Coils | Coil | Coil | 448 | 489 | - |
| 11 | g10989.t1 | Coils | Coil | Coil | 519 | 574 | - |
| 14 | g10989.t1 | Coils | Coil | Coil | 583 | 603 | - |
| 17 | g10989.t1 | Coils | Coil | Coil | 608 | 639 | - |
| 13 | g10989.t1 | Coils | Coil | Coil | 736 | 791 | - |
| 7 | g10989.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 19 | - |
| 8 | g10989.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 25 | - |
| 2 | g10989.t1 | PANTHER | PTHR18902:SF30 | FI04457P | 9 | 283 | 1.5E-95 |
| 4 | g10989.t1 | PANTHER | PTHR18902 | NUCLEAR MITOTIC APPARATUS PROTEIN 1-RELATED | 9 | 283 | 1.5E-95 |
| 3 | g10989.t1 | PANTHER | PTHR18902:SF30 | FI04457P | 281 | 841 | 1.5E-95 |
| 5 | g10989.t1 | PANTHER | PTHR18902 | NUCLEAR MITOTIC APPARATUS PROTEIN 1-RELATED | 281 | 841 | 1.5E-95 |
| 1 | g10989.t1 | Pfam | PF01465 | GRIP domain | 793 | 833 | 1.1E-12 |
| 21 | g10989.t1 | ProSiteProfiles | PS50913 | GRIP domain profile. | 787 | 837 | 14.149 |
| 6 | g10989.t1 | SMART | SM00755 | 1grip | 790 | 837 | 1.1E-15 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K20282 (GRIP and coiled-coil domain-containing protein 2)
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.
