DDX28 (DEAD-box helicase 28) - Rat Genome Database

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Gene: DDX28 (DEAD-box helicase 28) Canis lupus familiaris
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Symbol: DDX28
Name: DEAD-box helicase 28
RGD ID: 12085553
Description: ENCODES a protein that exhibits rRNA binding (ortholog); INVOLVED IN mitochondrial large ribosomal subunit assembly (ortholog); ASSOCIATED WITH autosomal dominant dyskeratosis congenita 6 (ortholog); genetic disease (ortholog); FOUND IN mitochondrial nucleoid (ortholog); mitochondrion (ortholog); nucleolus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: probable ATP-dependent RNA helicase DDX28
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1581,489,718 - 81,491,760 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha581,479,630 - 81,481,674 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0581,924,704 - 81,926,748 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1581,751,293 - 81,753,337 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0581,433,517 - 81,435,561 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0582,075,452 - 82,077,496 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
DDX28
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1581,489,718 - 81,491,760 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha581,479,630 - 81,481,674 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0581,924,704 - 81,926,748 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1581,751,293 - 81,753,337 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0581,433,517 - 81,435,561 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0582,075,452 - 82,077,496 (+)NCBIUU_Cfam_GSD_1.0
DDX28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381668,020,916 - 68,023,232 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1668,020,916 - 68,023,232 (-)EnsemblGRCh38hg38GRCh38
GRCh371668,054,819 - 68,057,135 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361666,612,675 - 66,615,460 (-)NCBINCBI36Build 36hg18NCBI36
Build 341666,612,674 - 66,615,460NCBI
Celera1652,563,630 - 52,566,223 (-)NCBICelera
Cytogenetic Map16q22.1NCBI
HuRef1653,928,754 - 53,931,347 (-)NCBIHuRef
CHM1_11669,463,195 - 69,465,788 (-)NCBICHM1_1
T2T-CHM13v2.01673,816,696 - 73,819,012 (-)NCBIT2T-CHM13v2.0
Ddx28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398106,736,248 - 106,738,118 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8106,736,253 - 106,738,514 (-)EnsemblGRCm39 Ensembl
GRCm388106,009,616 - 106,011,486 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8106,009,621 - 106,011,882 (-)EnsemblGRCm38mm10GRCm38
MGSCv378108,533,516 - 108,535,386 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368108,898,751 - 108,900,562 (-)NCBIMGSCv36mm8
Celera8110,237,668 - 110,239,538 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.08NCBI
Ddx28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81950,819,643 - 50,821,573 (-)NCBIGRCr8
mRatBN7.21933,909,799 - 33,911,729 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1933,909,801 - 33,911,742 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1940,725,329 - 40,727,259 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01941,378,646 - 41,380,576 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01943,677,546 - 43,679,476 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01937,988,423 - 37,990,353 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1937,988,423 - 37,990,353 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01948,855,409 - 48,857,339 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41935,856,545 - 35,858,475 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11935,861,723 - 35,863,394 (-)NCBI
Celera1933,337,342 - 33,339,272 (-)NCBICelera
Cytogenetic Map19q12NCBI
Ddx28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554848,609,895 - 8,612,309 (+)NCBIChiLan1.0ChiLan1.0
LOC103785397
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21877,547,560 - 77,549,510 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11683,458,879 - 83,460,857 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01648,362,204 - 48,364,134 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11667,786,315 - 67,788,330 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1667,786,592 - 67,788,211 (-)Ensemblpanpan1.1panPan2
LOC101964431
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934941,235,307 - 41,237,203 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647518,352,139 - 18,353,761 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647518,351,924 - 18,353,793 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDX28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl628,615,330 - 28,617,335 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1628,615,461 - 28,617,443 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2626,002,074 - 26,003,953 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DDX28
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1559,412,602 - 59,415,170 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl559,413,265 - 59,414,905 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604722,145,860 - 22,147,905 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in DDX28
12 total Variants

Expression


Sequence


RefSeq Acc Id: XM_038477327   ⟹   XP_038333255
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1581,751,293 - 81,753,337 (+)NCBI
RefSeq Acc Id: XM_038538529   ⟹   XP_038394457
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0582,075,452 - 82,077,496 (+)NCBI
RefSeq Acc Id: XM_038602646   ⟹   XP_038458574
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0581,433,517 - 81,435,561 (+)NCBI
RefSeq Acc Id: XM_038667256   ⟹   XP_038523184
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0581,924,704 - 81,926,748 (+)NCBI
RefSeq Acc Id: XM_546867   ⟹   XP_546867
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1581,489,718 - 81,491,760 (+)NCBI
Dog10K_Boxer_Tasha581,479,630 - 81,481,674 (+)NCBI
Sequence:
RefSeq Acc Id: XP_546867   ⟸   XM_546867
- UniProtKB: A0A8C0L8F0 (UniProtKB/TrEMBL),   A0A8C0SE54 (UniProtKB/TrEMBL),   A0A8C0NEC6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_038333255   ⟸   XM_038477327
RefSeq Acc Id: XP_038458574   ⟸   XM_038602646
RefSeq Acc Id: XP_038523184   ⟸   XM_038667256
- UniProtKB: A0A8C0NEC6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038394457   ⟸   XM_038538529
- UniProtKB: A0A8C0NEC6 (UniProtKB/TrEMBL)
Promoters
RGD ID:13683464
Promoter ID:EPDNEW_C1532
Type:multiple initiation site
Name:DDX28_1
Description:DEAD-box helicase 28
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1581,489,725 - 81,489,785EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00030016106 UniProtKB/TrEMBL
  ENSCAFG00040012571 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00030029665.1 UniProtKB/TrEMBL
  ENSCAFT00040023163.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro DEAD/DEAH_box_helicase_dom UniProtKB/TrEMBL
  Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  RNA_helicase_DEAD_Q_motif UniProtKB/TrEMBL
KEGG Report cfa:489747 UniProtKB/TrEMBL
NCBI Gene DDX28 ENTREZGENE
PANTHER ATP-DEPENDENT RNA HELICASE RHLE UniProtKB/TrEMBL
  ATP-DEPENDENT RNA HELICASE RHLE-RELATED UniProtKB/TrEMBL
Pfam DEAD UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
PROSITE HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
  Q_MOTIF UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8C0L8F0 ENTREZGENE
  A0A8C0NEC6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0SE54 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:39853 ENTREZGENE