Rh1DG003900

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0000779
Physical Location & Seq
Forward (+)
585008 .. 585574
567 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG003900.1

Sequence Viewer

Length: 567 bp
ATGAATTTTCTATCCCCGAATAGAAAGTTTGCAGGGAATATGAGGCTACTCTGGGTTGATTTTCGTGTACTGAAAGCATTTGTTGTAGAAAACTCCAATGATCTTGACGCAGGTGTCAATGATGTGCTGAATGAGGTTCTCCGTTTCTTGAACAAGCGTCCTGAGAGTCGTGCAAATGTTCAATCTCCTAGCAGCCAACCAATTGCAGCTGAATCTGAGGACCGAAGTAAAGAATTGATTCATCAGCGGGTAGATAAGGAAGTAGAGGTTGAGCTATTTCTAGCAGCAGGATTCAGTGCTAGTGAGGGAGGAGGAATCAATTCTCCATGGGATGAAGAACATATTCCAGAAGAAATTGTTAGTACGAAACCTAATCCAAGAATTATTGTGCAGCAATATGAATATTCAATTCTTGGAGCTTTGATTGATGTCTTAAAGGTTGTTGGGGAGCAGTTGATTGCTACAAGTCCTGTGGAGTGGGGTGTGGGTAATATAGTGAGGATTTTGCACAGTATCATGGAGGAGGATGTTTCTCGCACCATAATTGCTCTGGCTGGGTTGGGTTGA
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
CUE

Protein Analysis

188

Amino Acids

20.88

Weight (kDa)

4.81

Isoelectric Point (pI)

48.27

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: OG0000779)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g29862
rosa_chinensis RchiOBHm_Chr1g0313641 RchiOBHm_Chr4g0408161 RchiOBHm_Chr4g0408171 RchiOBHm_Chr4g0437611 RchiOBHm_Chr4g0437621 RchiOBHm_Chr4g0444671 RchiOBHm_Chr5g0045021 RchiOBHm_Chr5g0070121 RchiOBHm_Chr5g0082551 RchiOBHm_Chr6g0247501 RchiOBHm_Chr6g0271311 RchiOBHm_Chr6g0290811 RchiOBHm_Chr6g0310571
rosa_laevigata RLG00000004718 RLG00000008552 RLG00000015595
rosa_multiflora Rmu_co8342433.1_g000001 Rmu_sc0000147.1_g000080 Rmu_sc0000391.1_g000018 Rmu_sc0000753.1_g000021 Rmu_sc0000870.1_g000071 Rmu_sc0000870.1_g000072 Rmu_sc0001648.1_g000026 Rmu_sc0001648.1_g000043 Rmu_sc0001972.1_g000009 Rmu_sc0002109.1_g000009 Rmu_sc0003340.1_g000008 Rmu_sc0003340.1_g000009 Rmu_sc0004874.1_g000014 Rmu_sc0005823.1_g000009 Rmu_sc0005941.1_g000006 Rmu_sc0009850.1_g000015 Rmu_sc0015511.1_g000012
rosa_roxburghii Rroxscaffold_1G00034320 Rroxscaffold_1G00036130 Rroxscaffold_1G00043440 Rroxscaffold_1G00043450 Rroxscaffold_1G00050660 Rroxscaffold_1G00050670 Rroxscaffold_1G00066940 Rroxscaffold_2G00094100 Rroxscaffold_2G00120240 Rroxscaffold_4G00287900 Rroxscaffold_4G00287910 Rroxscaffold_4G00290700 Rroxscaffold_4G00290710 Rroxscaffold_4G00298640 Rroxscaffold_4G00308540 Rroxscaffold_5G00369420 Rroxscaffold_7G00217900
rosa_rugosa Rorug06G0077100
rosa_samantha Rh1AG005600 Rh1AG005700 Rh1BG433000 Rh1DG003900 Rh2CG286600 Rh3AG243900 Rh3BG368800 Rh5AG301800 Rh5BG309500 Rh5CG501500 Rh5CG501600 Rh5DG320200 Rh6AG179500 Rh6CG338800 Rh6CG405000 Rh6DG092100 Rh7AG294100 Rh7CG239600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 101
AasI GACNNNNNNGTC 1 cut(s) 113
Acc36I ACCTGC 1 cut(s) 101
AciI CCGC 1 cut(s) 247
AcsI RAATTY 1 cut(s) 4
AfaI GTAC 2 cut(s) 69, 364
AgsI TTSAA 3 cut(s) 151, 182, 408
AluBI AGCT 3 cut(s) 209, 274, 419
AluI AGCT 3 cut(s) 209, 274, 419
ApeKI GCWGC 4 cut(s) 192, 206, 284, 391
ApoI RAATTY 1 cut(s) 4
Asp700I GAANNNNTTC 3 cut(s) 237, 319, 342
AspS9I GGNCC 1 cut(s) 220
AvaII GGWCC 1 cut(s) 220
BbvI GCAGC 4 cut(s) 204, 218, 296, 403
BfaI CTAG 3 cut(s) 189, 281, 300
BfuAI ACCTGC 1 cut(s) 101
BisI GCNGC 4 cut(s) 193, 207, 285, 392
BlsI GCNGC 4 cut(s) 194, 208, 286, 393
Bme18I GGWCC 1 cut(s) 220
BmgT120I GGNCC 1 cut(s) 220
BsaJI CCNNGG 1 cut(s) 326
BseDI CCNNGG 1 cut(s) 326
BseGI GGATG 2 cut(s) 337, 532
BseMII CTCAG 2 cut(s) 153, 207
BseRI GAGGAG 2 cut(s) 324, 536
BseXI GCAGC 4 cut(s) 204, 218, 296, 403
BseYI CCCAGC 1 cut(s) 554
BsgI GTGCAG 1 cut(s) 410
Bsp143I GATC 1 cut(s) 100
Bsp19I CCATGG 1 cut(s) 326
BspACI CCGC 1 cut(s) 247
BspCNI CTCAG 2 cut(s) 154, 208
BspMI ACCTGC 1 cut(s) 101
BssECI CCNNGG 1 cut(s) 326
BssMI GATC 1 cut(s) 100
BssT1I CCWWGG 1 cut(s) 326
Bst4CI ACNGT 1 cut(s) 512
BstDEI CTNAG 2 cut(s) 162, 216
BstDSI CCRYGG 1 cut(s) 326
BstF5I GGATG 2 cut(s) 337, 532
BstKTI GATC 1 cut(s) 103
BstMBI GATC 1 cut(s) 100
BstV1I GCAGC 4 cut(s) 204, 218, 296, 403
BtgI CCRYGG 1 cut(s) 326
BtsCI GGATG 2 cut(s) 337, 532
BtsIMutI CAGTG 1 cut(s) 301
BveI ACCTGC 1 cut(s) 101
Cfr13I GGNCC 1 cut(s) 220
CseI GACGC 2 cut(s) 116, 146
Csp6I GTAC 2 cut(s) 68, 363
CspCI CAANNNNNGTGG 2 cut(s) 453, 488
CviAII CATG 2 cut(s) 327, 517
CviJI RGCY 6 cut(s) 46, 195, 209, 274, 419, 554
CviKI_1 RGCY 6 cut(s) 46, 195, 209, 274, 419, 554
CviQI GTAC 2 cut(s) 68, 363
DdeI CTNAG 2 cut(s) 162, 216
DpnI GATC 1 cut(s) 102
DpnII GATC 1 cut(s) 100
DrdI GACNNNNNNGTC 1 cut(s) 113
DseDI GACNNNNNNGTC 1 cut(s) 113
Eco130I CCWWGG 1 cut(s) 326
Eco47I GGWCC 1 cut(s) 220
EcoT14I CCWWGG 1 cut(s) 326
ErhI CCWWGG 1 cut(s) 326
FaeI CATG 2 cut(s) 330, 520
FaiI YATR 7 cut(s) 41, 328, 342, 399, 494, 518, 542
FatI CATG 2 cut(s) 326, 516
FauI CCCGC 1 cut(s) 240
Fnu4HI GCNGC 4 cut(s) 193, 207, 285, 392
FokI GGATG 2 cut(s) 344, 539
Fsp4HI GCNGC 4 cut(s) 193, 207, 285, 392
FspBI CTAG 3 cut(s) 189, 281, 300
GluI GCNGC 4 cut(s) 193, 207, 285, 392
GsaI CCCAGC 1 cut(s) 558
HgaI GACGC 2 cut(s) 116, 146
Hin1II CATG 2 cut(s) 330, 520
HinfI GANTC 5 cut(s) 166, 212, 238, 291, 315
Hpy166II GTNNAC 1 cut(s) 68
Hpy188I TCNGA 1 cut(s) 217
Hpy188III TCNNGA 4 cut(s) 104, 148, 161, 347
Hpy8I GTNNAC 1 cut(s) 68
HpyCH4III ACNGT 1 cut(s) 512
HpyCH4V TGCA 5 cut(s) 32, 173, 206, 391, 508
HpyF3I CTNAG 2 cut(s) 162, 216
Hsp92II CATG 2 cut(s) 330, 520
Kzo9I GATC 1 cut(s) 100
LmnI GCTCC 2 cut(s) 416, 448
LpnPI CCDG 9 cut(s) 18, 37, 96, 174, 273, 360, 483, 536, 540
Lsp1109I GCAGC 4 cut(s) 204, 218, 296, 403
MaeI CTAG 3 cut(s) 189, 281, 300
MalI GATC 1 cut(s) 102
MboI GATC 1 cut(s) 100
MboII GAAGA 2 cut(s) 347, 362
MfeI CAATTG 1 cut(s) 201
MluCI AATT 8 cut(s) 4, 201, 233, 319, 354, 381, 408, 543
MlyI GAGTC 1 cut(s) 175
MroXI GAANNNNTTC 3 cut(s) 237, 319, 342
MseI TTAA 1 cut(s) 434
MspA1I CMGCKG 2 cut(s) 209, 247
MunI CAATTG 1 cut(s) 201
NcoI CCATGG 1 cut(s) 326
NdeII GATC 1 cut(s) 100
NlaIII CATG 2 cut(s) 330, 520
PaqCI CACCTGC 1 cut(s) 101
PdmI GAANNNNTTC 3 cut(s) 237, 319, 342
PfeI GAWTC 4 cut(s) 212, 238, 291, 315
PkrI GCNGC 4 cut(s) 194, 208, 286, 393
PleI GAGTC 1 cut(s) 174
PpsI GAGTC 1 cut(s) 174
PspFI CCCAGC 1 cut(s) 554
PspPI GGNCC 1 cut(s) 220
PvuII CAGCTG 1 cut(s) 209
RsaI GTAC 2 cut(s) 69, 364
RsaNI GTAC 2 cut(s) 68, 363
SaqAI TTAA 1 cut(s) 434
SatI GCNGC 4 cut(s) 193, 207, 285, 392
Sau3AI GATC 1 cut(s) 100
Sau96I GGNCC 1 cut(s) 220
SchI GAGTC 1 cut(s) 175
SetI ASST 8 cut(s) 115, 138, 211, 270, 276, 373, 421, 441
SinI GGWCC 1 cut(s) 220
Sse9I AATT 8 cut(s) 4, 201, 233, 319, 354, 381, 408, 543
SsiI CCGC 1 cut(s) 247
SspI AATATT 1 cut(s) 404
SspMI CTAG 3 cut(s) 189, 281, 300
StyI CCWWGG 1 cut(s) 326
TaaI ACNGT 1 cut(s) 512
TaqII GACCGA 1 cut(s) 237
TasI AATT 8 cut(s) 4, 201, 233, 319, 354, 381, 408, 543
TatI WGTACW 1 cut(s) 67
TfiI GAWTC 4 cut(s) 212, 238, 291, 315
Tru1I TTAA 1 cut(s) 434
Tru9I TTAA 1 cut(s) 434
TscAI CASTG 1 cut(s) 301
TseI GCWGC 4 cut(s) 192, 206, 284, 391
TspDTI ATGAA 4 cut(s) 17, 230, 348, 414
TspGWI ACGGA 1 cut(s) 131
TspRI CASTG 1 cut(s) 301
VpaK11BI GGWCC 1 cut(s) 220
XapI RAATTY 1 cut(s) 4
XcmI CCANNNNNNNNNTGG 1 cut(s) 547
XmnI GAANNNNTTC 3 cut(s) 237, 319, 342
XspI CTAG 3 cut(s) 189, 281, 300
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.