General information for g1531.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dynein intermediate chain 3, ciliary.
Parent gene
- The parent gene g1531 is located on chr_3: 11641715..11646508 (- 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 | g1531 | g1531.t1 | isoform | g1531.t1 | 11641715 | 11646508 |
| chr_3 | g1531 | g1531.t1 | exon | g1531.t1.exon1 | 11641715 | 11642239 |
| chr_3 | g1531 | g1531.t1 | cds | g1531.t1.CDS1 | 11641715 | 11642239 |
| chr_3 | g1531 | g1531.t1 | exon | g1531.t1.exon2 | 11642313 | 11642459 |
| chr_3 | g1531 | g1531.t1 | cds | g1531.t1.CDS2 | 11642313 | 11642459 |
| chr_3 | g1531 | g1531.t1 | exon | g1531.t1.exon3 | 11642928 | 11643197 |
| chr_3 | g1531 | g1531.t1 | cds | g1531.t1.CDS3 | 11642928 | 11643197 |
| chr_3 | g1531 | g1531.t1 | exon | g1531.t1.exon4 | 11643540 | 11644136 |
| chr_3 | g1531 | g1531.t1 | cds | g1531.t1.CDS4 | 11643540 | 11644136 |
| chr_3 | g1531 | g1531.t1 | exon | g1531.t1.exon5 | 11645969 | 11646106 |
| chr_3 | g1531 | g1531.t1 | cds | g1531.t1.CDS5 | 11645969 | 11646106 |
| chr_3 | g1531 | g1531.t1 | exon | g1531.t1.exon6 | 11646164 | 11646508 |
| chr_3 | g1531 | g1531.t1 | cds | g1531.t1.CDS6 | 11646164 | 11646508 |
| chr_3 | g1531 | g1531.t1 | TSS | g1531.t1 | NA | NA |
| chr_3 | g1531 | g1531.t1 | TTS | g1531.t1 | NA | NA |
Sequences
>g1531.t1 Gene=g1531 Length=2022
ATGACAGAACCACAATATGTTTATCAAAAAGAGCGTAAAGAATTTGGACGACAATGTCTA
TTTGCTGATAAGAAATATTTGATGGTTTCAATTGCATCAGAACATTCAGAATTTAATAAT
TACATTCTACGCAATCCAGTATCAGAAGGAACACAATTGGGCAAGCAATATGCACTTACA
GAAGTTAATACAGTCTCAACAACTACAGAAAGTCGTGGAATAATGCATACTGAAGGTGGA
TGGCCAAAAGATGTGAATTTTCAAGATGCAGAACAGACATTGCGATATCGTCGTAAATTA
GAAAAGGATGAAACGTACATCACTCAAGTGCCACGAATGGGAGAGAAAGTTGAATTTTGT
ATTTTACAAAATAATGCTGTAAATATTTATGAAGAATATTTTGCTGATTTGGATCCGGCA
CCGATTGTCGATCGTTGTCATTCACGAACGATGTATGTTTATAAAGATGTTGAAGAGCCT
TCGCGTCCAATTAGCCATTTATCATGGTCATGTGATGGTGGATCGAAACTCGCAATTACA
TATTGTGATACAAATTTTCAAAAGCGCACATCTGGTGTGTCATTCAACTCGTATATTTGG
GAAACGGAAAATCCAAATCAGCCACTTTACAAAATTTCACCATCAGGTCCATCAATTTGT
ATTGAGTATCATAACAAGGATCCATATTTGCTTGTTAGTGGTCAACAGAATGGACAATGT
TGTGCTTTTGATACTCGTTCTGGCCCTAATCCTGTTTTTTGCACACCACGCGAAGTTTCT
CATCGTGAAAGTGTCAATTCTGTGTTATGGATTAATAGTAAAACCCATACTGAATGTTTC
TCGGGTGGTGCTGATGGTCAAGTTGTTTGGTGGGATATTCGAAGATTTAATGAGCGTCTT
GATGTGCTTTATATGGATCCAATGAAGACAGATGACCAATCACTTGATCGCGCTTATGGA
GTTTCAGTTCTTGAATACGAAACGACAATTCCAACTCGTTTCATGGTGGGCACTGAGCAA
GGCATGCTGTTCTTTTGCAATCGTAAAGGAAAAACACCTATGGAGAAAATTCCATTGAGG
ATGCAATGTCACGCCAGTCCCATCTACACATTAGCTCGCAATCCATCGTTTTTCAAGAAT
TTCATCACAGTAGGTGACTGGAATGCTCGAATATGGTCAGAAGATTGTAAAGAGAGCTCC
ATTATCTGGACAAAATATTGCAATGTGGAACTAACTGGTGGCTGCTGGTCGCCAACAAAA
TGTTCATTGTTTTATCTCAGTCGTATGGATGGAAATGTAGAAGCATGGGATTTATTGCAA
CAGCAAAGTGAGCCAGTCCTTACAATCAAGGTTTCAGATCATGCCATAAGATGCTTGAAA
CCCCACGAATCAGGAAAGATGGTAGCATGTGGTAGTGCAAACGGATTTGTACACTTAATG
GAAGTCTCAGAGAACATGAGTTTCAGTGCGAAAAACGATAAAGCGATATTAAATGCTATG
CTCGACCGCGAAAGTAAGCGTGAAAAAATTCTCGAAGGAAAATTGCGTGAAATAAAAATC
AAATTGAAAAAGCAACTTGAATTGCAAGATGCAAAAGTTTCTGATTTGTTGCAATTGCAA
GCTGAAATGCCACCAGAAGAAACAAAGGTTTATGATGATTTACCTAAAATTAAACCTGAA
TTGGTTGCACAACTTATTGATACAGCAAATAAAGAATTCTTTTCAATGATTGAGGAAGAA
ACGCAACGACGCATAAAAGCAGTACAAAATGAAGCATCATCGGGTAAGAAATCGCTGAAG
ACAAAGAAAAAACACGATGGAAGTAGCACGGAAATTCATCAGAACCAATCAAGTGAAAGA
CTCGATGAGGAAGTCACGAATGGCCATAATGATGAGCATGAGAATAAAAATCAAATGAAT
GGCAATGCAGCAACAACAACAAATGGTCATGTTAATGAAAATGGACACACGAATGGTCAT
GATGATGCTGATGATGAGCAACAAAAACAAGAACAAGAATAA
>g1531.t1 Gene=g1531 Length=673
MTEPQYVYQKERKEFGRQCLFADKKYLMVSIASEHSEFNNYILRNPVSEGTQLGKQYALT
EVNTVSTTTESRGIMHTEGGWPKDVNFQDAEQTLRYRRKLEKDETYITQVPRMGEKVEFC
ILQNNAVNIYEEYFADLDPAPIVDRCHSRTMYVYKDVEEPSRPISHLSWSCDGGSKLAIT
YCDTNFQKRTSGVSFNSYIWETENPNQPLYKISPSGPSICIEYHNKDPYLLVSGQQNGQC
CAFDTRSGPNPVFCTPREVSHRESVNSVLWINSKTHTECFSGGADGQVVWWDIRRFNERL
DVLYMDPMKTDDQSLDRAYGVSVLEYETTIPTRFMVGTEQGMLFFCNRKGKTPMEKIPLR
MQCHASPIYTLARNPSFFKNFITVGDWNARIWSEDCKESSIIWTKYCNVELTGGCWSPTK
CSLFYLSRMDGNVEAWDLLQQQSEPVLTIKVSDHAIRCLKPHESGKMVACGSANGFVHLM
EVSENMSFSAKNDKAILNAMLDRESKREKILEGKLREIKIKLKKQLELQDAKVSDLLQLQ
AEMPPEETKVYDDLPKIKPELVAQLIDTANKEFFSMIEEETQRRIKAVQNEASSGKKSLK
TKKKHDGSSTEIHQNQSSERLDEEVTNGHNDEHENKNQMNGNAATTTNGHVNENGHTNGH
DDADDEQQKQEQE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g1531.t1 | Gene3D | G3DSA:2.130.10.10 | - | 144 | 302 | 1.8E-16 |
| 12 | g1531.t1 | Gene3D | G3DSA:2.130.10.10 | - | 306 | 494 | 6.2E-13 |
| 11 | g1531.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 587 | 673 | - |
| 9 | g1531.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 604 | 636 | - |
| 10 | g1531.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 637 | 654 | - |
| 8 | g1531.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 655 | 673 | - |
| 1 | g1531.t1 | PANTHER | PTHR12442:SF7 | DYNEIN INTERMEDIATE CHAIN 2, AXONEMAL | 5 | 534 | 3.9E-162 |
| 2 | g1531.t1 | PANTHER | PTHR12442 | DYNEIN INTERMEDIATE CHAIN | 5 | 534 | 3.9E-162 |
| 4 | g1531.t1 | SMART | SM00320 | WD40_4 | 205 | 244 | 11.0 |
| 7 | g1531.t1 | SMART | SM00320 | WD40_4 | 248 | 292 | 2.0 |
| 6 | g1531.t1 | SMART | SM00320 | WD40_4 | 354 | 393 | 9.9 |
| 5 | g1531.t1 | SMART | SM00320 | WD40_4 | 442 | 481 | 0.38 |
| 3 | g1531.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 157 | 479 | 2.62E-34 |
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 |
KEGG
Orthology
- This transcript has been annotated with K11143 (dynein axonemal intermediate chain 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. There were no conditions that were differentially expressed