Rh5DG061600

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000441
Physical Location & Seq
Reverse (-)
5254030 .. 5258651
4622 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG061600.1

Sequence Viewer

Length: 510 bp
ATGTGGCATGGAGGGAAGACTGGAGTATTTGTTAAGGATGTACTAGCGATCTTGAATGAGGAAGCTGTCGGTGTGCAGGCTATGGATGCATATCTTGAAATATTAGGTCACAAGCATCTAGAGCAGGGTGACCCTGTATCTTTGTTTGTGTCCACTTTTGATTGGTATGATGATATGAAAGGCGGAGAACCAAAAGCAAGAGTTGAAGCTTACTATGAACCTTTGTTCAATAATGTCTGCAATATGGACTTCGTTTTTCTCCCAATTATACATAAGAAACAGCAACAATTCACCTTGTTAGTCCTAAACAAAGAACTTCAATGTTGGGAACACTACAATACTCAAAGACCAAAGCAAACTACATTAGTGGACCCTGCTTTGAAGATGCATCCAGATTGTGATCCGCCAAAACACGTCGTTGTCGGCGAGGTTAGAAGGACTAACGTCTCCGGGAACGATGCCTTCGCCGCGATCTGCAACAAGGACGACCGATACGACATCTACAAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

169

Amino Acids

19.4

Weight (kDa)

5.59

Isoelectric Point (pI)

47.79

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000441)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g25221 FvH4_2g35252 FvH4_5g07921 FvH4_5g28462
malus_domestica MD05G1260800.v1.1 MD07G1009100.v1.1 MD15G1218700.v1.1
pyrus_communis pycom06g12090 pycom06g12100 pycom13g29410 pycom14g00750 pycom14g00760 pycom17g09320
rosa_chinensis RchiOBHm_Chr1g0331351 RchiOBHm_Chr5g0012151 RchiOBHm_Chr5g0033751 RchiOBHm_Chr5g0050991 RchiOBHm_Chr6g0253451
rosa_laevigata RLG00000003481 RLG00000004801 RLG00000006482 RLG00000007938 RLG00000008591 RLG00000015997 RLG00000016551 RLG00000019935 RLG00000023215 RLG00000023450 RLG00000026296 RLG00000029174 RLG00000030924 RLG00000032897 RLG00000036108
rosa_multiflora Rmu_sc0000611.1_g000017 Rmu_sc0001084.1_g000012 Rmu_sc0001296.1_g000006 Rmu_sc0001306.1_g000031 Rmu_sc0001473.1_g000034 Rmu_sc0002806.1_g000024 Rmu_sc0004605.1_g000010 Rmu_sc0013864.1_g000011
rosa_roxburghii Rroxscaffold_7G00210800
rosa_rugosa Rorug05G0253300
rosa_samantha Rh1AG193700 Rh1BG004100 Rh1BG004200 Rh1DG121500 Rh2AG369300 Rh4BG319300 Rh4BG319400 Rh4CG334700 Rh4CG334800 Rh4DG097100 Rh4DG097200 Rh5AG009200 Rh5AG183100 Rh5BG347200 Rh5CG010100 Rh5CG074900 Rh5CG075000 Rh5CG103300 Rh5CG263100 Rh5CG263300 Rh5DG061600 Rh5DG061700 Rh5DG250100 Rh5DG250200 Rh5DG360300 Rh5DG481800 Rh6BG120200 Rh6CG118200 Rh6CG118300 Rh6CG118400 Rh6CG257400 Rh6DG106600 Rh6DG106700 Rh6DG106800 Rh7AG076400 Rh7AG368300 Rh7AG501100 Rh7BG428100 Rh7BG443600 Rh7BG472400 Rh7CG386600 Rh7CG386700 Rh7DG258200
rosa_wichuraiana Rw0G020150 Rw2G018580 Rw3G027670 Rw4G017220 Rw5G012220 Rw5G016600 Rw7G006450 Rw7G017450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 470
AciI CCGC 3 cut(s) 183, 404, 468
AclWI GGATC 1 cut(s) 395
AfaI GTAC 1 cut(s) 42
AflIII ACRYGT 1 cut(s) 412
AgsI TTSAA 6 cut(s) 55, 98, 206, 229, 320, 382
AjiI CACGTC 1 cut(s) 415
AluBI AGCT 2 cut(s) 65, 209
AluI AGCT 2 cut(s) 65, 209
Alw26I GTCTC 1 cut(s) 451
AlwI GGATC 1 cut(s) 395
AspS9I GGNCC 1 cut(s) 370
AsuC2I CCSGG 1 cut(s) 451
AsuHPI GGTGA 2 cut(s) 140, 283
AvaII GGWCC 1 cut(s) 370
BbsI GAAGAC 1 cut(s) 23
BcnI CCSGG 1 cut(s) 451
BcoDI GTCTC 1 cut(s) 451
BfaI CTAG 2 cut(s) 44, 119
BisI GCNGC 1 cut(s) 468
BlsI GCNGC 1 cut(s) 469
Bme1390I CCNGG 1 cut(s) 451
Bme18I GGWCC 1 cut(s) 370
BmgBI CACGTC 1 cut(s) 415
BmgT120I GGNCC 1 cut(s) 370
BmiI GGNNCC 1 cut(s) 372
BmrFI CCNGG 1 cut(s) 451
BmsI GCATC 5 cut(s) 76, 124, 375, 397, 448
BoxI GACNNNNGTC 1 cut(s) 443
BpiI GAAGAC 1 cut(s) 23
BpmI CTGGAG 1 cut(s) 42
BpuMI CCSGG 1 cut(s) 451
BsaBI GATNNNNATC 2 cut(s) 90, 399
BsaXI ACNNNNNCTCC 2 cut(s) 15, 45
Bse1I ACTGG 1 cut(s) 25
Bse8I GATNNNNATC 2 cut(s) 90, 399
BseGI GGATG 3 cut(s) 43, 91, 388
BseJI GATNNNNATC 2 cut(s) 90, 399
BseNI ACTGG 1 cut(s) 25
BsgI GTGCAG 1 cut(s) 95
Bsh1236I CGCG 1 cut(s) 470
Bsh1285I CGRYCG 1 cut(s) 490
BsiEI CGRYCG 1 cut(s) 490
BsiSI CCGG 1 cut(s) 450
BsmAI GTCTC 1 cut(s) 451
BsmBI CGTCTC 1 cut(s) 451
Bsp143I GATC 3 cut(s) 48, 400, 471
BspACI CCGC 3 cut(s) 183, 404, 468
BspFNI CGCG 1 cut(s) 470
BspLI GGNNCC 1 cut(s) 372
BspPI GGATC 1 cut(s) 395
BsrI ACTGG 1 cut(s) 25
BssMI GATC 3 cut(s) 48, 400, 471
BstC8I GCNNGC 1 cut(s) 78
BstEII GGTNACC 1 cut(s) 128
BstF5I GGATG 3 cut(s) 43, 91, 388
BstFNI CGCG 1 cut(s) 470
BstKTI GATC 3 cut(s) 51, 403, 474
BstMAI GTCTC 1 cut(s) 451
BstMBI GATC 3 cut(s) 48, 400, 471
BstMCI CGRYCG 1 cut(s) 490
BstMWI GCNNNNNNNGC 3 cut(s) 86, 121, 467
BstPAI GACNNNNGTC 1 cut(s) 443
BstPI GGTNACC 1 cut(s) 128
BstSCI CCNGG 1 cut(s) 449
BstUI CGCG 1 cut(s) 470
BstV2I GAAGAC 1 cut(s) 23
BtrI CACGTC 1 cut(s) 415
BtsCI GGATG 3 cut(s) 43, 91, 388
Cac8I GCNNGC 1 cut(s) 78
Cfr13I GGNCC 1 cut(s) 370
Csp6I GTAC 1 cut(s) 41
CviAII CATG 1 cut(s) 8
CviJI RGCY 3 cut(s) 65, 80, 209
CviKI_1 RGCY 3 cut(s) 65, 80, 209
CviQI GTAC 1 cut(s) 41
DpnI GATC 3 cut(s) 50, 402, 473
DpnII GATC 3 cut(s) 48, 400, 471
EciI GGCGGA 2 cut(s) 198, 393
Eco47I GGWCC 1 cut(s) 370
Eco91I GGTNACC 1 cut(s) 128
EcoO65I GGTNACC 1 cut(s) 128
EcoT22I ATGCAT 2 cut(s) 91, 390
Esp3I CGTCTC 1 cut(s) 451
FaeI CATG 1 cut(s) 11
FaiI YATR 9 cut(s) 9, 83, 91, 168, 176, 216, 245, 269, 273
FatI CATG 1 cut(s) 7
Fnu4HI GCNGC 1 cut(s) 468
FokI GGATG 3 cut(s) 50, 98, 375
Fsp4HI GCNGC 1 cut(s) 468
FspBI CTAG 2 cut(s) 44, 119
GluI GCNGC 1 cut(s) 468
GsuI CTGGAG 1 cut(s) 42
HapII CCGG 1 cut(s) 450
Hin1II CATG 1 cut(s) 11
HindIII AAGCTT 1 cut(s) 207
HpaII CCGG 1 cut(s) 450
HphI GGTGA 2 cut(s) 140, 283
Hpy166II GTNNAC 2 cut(s) 153, 370
Hpy188III TCNNGA 4 cut(s) 52, 95, 119, 392
Hpy8I GTNNAC 2 cut(s) 153, 370
Hpy99I CGWCG 1 cut(s) 419
HpyAV CCTTC 2 cut(s) 429, 472
HpyCH4IV ACGT 2 cut(s) 414, 444
HpyCH4V TGCA 5 cut(s) 76, 89, 240, 388, 477
HpyF10VI GCNNNNNNNGC 3 cut(s) 86, 121, 467
HpySE526I ACGT 2 cut(s) 414, 444
Hsp92II CATG 1 cut(s) 11
Kzo9I GATC 3 cut(s) 48, 400, 471
LpnPI CCDG 7 cut(s) 6, 62, 110, 147, 387, 405, 463
LweI GCATC 5 cut(s) 76, 124, 375, 397, 448
MaeI CTAG 2 cut(s) 44, 119
MaeII ACGT 2 cut(s) 414, 444
MaeIII GTNAC 2 cut(s) 107, 128
MalI GATC 3 cut(s) 50, 402, 473
MboI GATC 3 cut(s) 48, 400, 471
MboII GAAGA 2 cut(s) 28, 394
MluCI AATT 2 cut(s) 264, 287
MnlI CCTC 3 cut(s) 5, 52, 421
Mph1103I ATGCAT 2 cut(s) 91, 390
MseI TTAA 1 cut(s) 33
MspI CCGG 1 cut(s) 450
MspR9I CCNGG 1 cut(s) 451
MvnI CGCG 1 cut(s) 470
MwoI GCNNNNNNNGC 3 cut(s) 86, 121, 467
NciI CCSGG 1 cut(s) 451
NdeII GATC 3 cut(s) 48, 400, 471
NlaIII CATG 1 cut(s) 11
NlaIV GGNNCC 1 cut(s) 372
NmuCI GTSAC 2 cut(s) 107, 128
NsiI ATGCAT 2 cut(s) 91, 390
PcsI WCGNNNNNNNCGW 2 cut(s) 423, 492
PfoI TCCNGGA 1 cut(s) 449
PkrI GCNGC 1 cut(s) 469
PshAI GACNNNNGTC 1 cut(s) 443
PspEI GGTNACC 1 cut(s) 128
PspN4I GGNNCC 1 cut(s) 372
PspPI GGNCC 1 cut(s) 370
RsaI GTAC 1 cut(s) 42
RsaNI GTAC 1 cut(s) 41
SaqAI TTAA 1 cut(s) 33
SatI GCNGC 1 cut(s) 468
Sau3AI GATC 3 cut(s) 48, 400, 471
Sau96I GGNCC 1 cut(s) 370
ScrFI CCNGG 1 cut(s) 451
SetI ASST 8 cut(s) 67, 109, 211, 223, 296, 417, 432, 447
SfaNI GCATC 5 cut(s) 76, 124, 375, 397, 448
SinI GGWCC 1 cut(s) 370
Sse9I AATT 2 cut(s) 264, 287
SsiI CCGC 3 cut(s) 183, 404, 468
SspI AATATT 1 cut(s) 102
SspMI CTAG 2 cut(s) 44, 119
StyD4I CCNGG 1 cut(s) 449
TaiI ACGT 2 cut(s) 417, 447
TaqII GACCGA 1 cut(s) 504
TasI AATT 2 cut(s) 264, 287
TatI WGTACW 1 cut(s) 40
TauI GCSGC 1 cut(s) 470
Tru1I TTAA 1 cut(s) 33
Tru9I TTAA 1 cut(s) 33
TseFI GTSAC 2 cut(s) 107, 128
Tsp45I GTSAC 2 cut(s) 107, 128
TspDTI ATGAA 2 cut(s) 191, 231
VpaK11BI GGWCC 1 cut(s) 370
XbaI TCTAGA 1 cut(s) 118
XspI CTAG 2 cut(s) 44, 119
Zsp2I ATGCAT 2 cut(s) 91, 390
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.