Rh4DG026900

DNA repair helicase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0000571
Physical Location & Seq
Forward (+)
4810460 .. 4816297
5838 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG026900.1

Sequence Viewer

Length: 522 bp
ATGGAGCTTCCAGGTTGTTCATGGACAGGCCATGTTGAGAGGACAAAGATCTTAGAAGCCTTCAAAACAAGTCGGGATGTAAATACTGTATTCTTGTCAAAGGTGGGAGATAATTCTATTGACATTCCTGAGGCAACTGCTTTACTTCAATCTCCATCATCCCCAAACCCAGGTGAATACGAACTTGGTACGTCATTCTTGCCAAGCCAAAGCGGAGATGGATTTGGAGACAGAAATCCATTTGGCGATGGAGTTGAAGATGGGCCGCGACCATATTCTTGTCCCAAAAGGATTTCAGAGCCTGCAATTGAGATTTCTGCACACAAATTGGTGACTCTGGGCTTTGAATTTTGTCTTCTGGTGTTGAAATTTAACCGCGGTGAGTTCGAACAAGGCAATAGTGCAGTGTTTACTTTGGGTTGCCAGCGAATTGAAAGCAAGGCTCTTGGCTTTGACTCCAGGTGCTATAAGGAAGCCATACATAGACTATTGCTGACATCGAGAGTACAAAACAAGTCATGA

Protein Analysis

173

Amino Acids

19.0

Weight (kDa)

5.66

Isoelectric Point (pI)

50.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ERCC3_RAD25_C PF16203 9 - 51 1.2e-13 ERCC3/RAD25/XPB C-terminal helicase
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: OG0000571)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G15630
fragaria_vesca FvH4_2g07360
malus_domestica MD02G1234600.v1.1
prunus_persica Prupe.8G019300_v2.0.a1
pyrus_communis pycom02g20240 pycom05g06440 pycom10g06900
rosa_chinensis RchiOBHm_Chr2g0106031 RchiOBHm_Chr2g0124301 RchiOBHm_Chr2g0124591 RchiOBHm_Chr5g0034701 RchiOBHm_Chr6g0257571 RchiOBHm_Chr6g0259961 RchiOBHm_Chr6g0260151 RchiOBHm_Chr6g0260161 RchiOBHm_Chr6g0260361 RchiOBHm_Chr6g0260391 RchiOBHm_Chr6g0260531 RchiOBHm_Chr6g0260541 RchiOBHm_Chr6g0260661 RchiOBHm_Chr6g0260761 RchiOBHm_Chr6g0266771 RchiOBHm_Chr7g0210581 RchiOBHm_Chr7g0225201 RchiOBHm_Chr7g0225221
rosa_laevigata RLG00000001833 RLG00000001834 RLG00000014081 RLG00000014490 RLG00000014495 RLG00000015073 RLG00000034098
rosa_multiflora Rmu_sc0000414.1_g000008 Rmu_sc0000546.1_g000067 Rmu_sc0000588.1_g000057 Rmu_sc0000861.1_g000058 Rmu_sc0000861.1_g000059 Rmu_sc0002766.1_g000023 Rmu_sc0002968.1_g000001 Rmu_sc0003786.1_g000024 Rmu_sc0005472.1_g000021 Rmu_sc0010278.1_g000006 Rmu_sc0014629.1_g000014 Rmu_sc0036189.1_g000001
rosa_roxburghii Rroxscaffold_3G00234010 Rroxscaffold_5G00368980 Rroxscaffold_7G00201460 Rroxscaffold_7G00207310 Rroxscaffold_7G00207360 Rroxscaffold_7G00207370 Rroxscaffold_7G00210730
rosa_rugosa Rorug05G0196300 Rorug05G0359600 Rorug05G0591800 Rorug05G0592300 Rorug05G0592700 Rorug06G0023500 Rorug07G0228100
rosa_samantha Rh2CG188200 Rh2DG333800 Rh4DG026900 Rh5CG249600 Rh6BG104200 Rh6BG104500 Rh6BG105900 Rh6BG106000 Rh6CG076700 Rh6CG097500 Rh6CG098200 Rh6CG100800 Rh6CG101000 Rh6CG101200 Rh6CG102400 Rh6CG144100 Rh6DG093200 Rh7AG375200 Rh7AG375300 Rh7BG360300
rosa_wichuraiana Rw0G020720 Rw5G026430 Rw6G009370 Rw6G009450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 2 cut(s) 268, 378
AciI CCGC 4 cut(s) 213, 266, 376, 378
AcsI RAATTY 2 cut(s) 347, 368
AfaI GTAC 2 cut(s) 190, 507
AfiI CCNNNNNNNGG 1 cut(s) 170
AgsI TTSAA 6 cut(s) 64, 149, 257, 347, 367, 434
AjnI CCWGG 3 cut(s) 10, 169, 458
AjuI GAANNNNNNNTTGG 2 cut(s) 168, 200
AluBI AGCT 1 cut(s) 7
AluI AGCT 1 cut(s) 7
Alw26I GTCTC 1 cut(s) 222
AlwNI CAGNNNCTG 1 cut(s) 302
AoxI GGCC 2 cut(s) 28, 263
ApoI RAATTY 2 cut(s) 347, 368
AspS9I GGNCC 1 cut(s) 263
AsuHPI GGTGA 3 cut(s) 185, 343, 392
AsuII TTCGAA 1 cut(s) 387
AxyI CCTNAGG 1 cut(s) 129
BbsI GAAGAC 1 cut(s) 347
BccI CCATC 4 cut(s) 163, 212, 242, 254
BciT130I CCWGG 3 cut(s) 12, 171, 460
BcoDI GTCTC 1 cut(s) 222
BglII AGATCT 1 cut(s) 48
BisI GCNGC 1 cut(s) 266
BlsI GCNGC 1 cut(s) 267
Bme1390I CCNGG 3 cut(s) 12, 171, 460
BmgT120I GGNCC 1 cut(s) 263
BmrFI CCNGG 3 cut(s) 12, 171, 460
BpiI GAAGAC 1 cut(s) 347
BpmI CTGGAG 1 cut(s) 442
Bpu14I TTCGAA 1 cut(s) 387
BsaJI CCNNGG 2 cut(s) 169, 376
Bsc4I CCNNNNNNNGG 1 cut(s) 170
Bse21I CCTNAGG 1 cut(s) 129
BseBI CCWGG 3 cut(s) 12, 171, 460
BseDI CCNNGG 2 cut(s) 169, 376
BseGI GGATG 2 cut(s) 82, 158
BseLI CCNNNNNNNGG 1 cut(s) 170
BseMII CTCAG 1 cut(s) 120
BsgI GTGCAG 2 cut(s) 303, 423
Bsh1236I CGCG 2 cut(s) 268, 378
BshFI GGCC 2 cut(s) 30, 265
BslFI GGGAC 1 cut(s) 267
BslI CCNNNNNNNGG 1 cut(s) 170
BsmAI GTCTC 1 cut(s) 222
BsmFI GGGAC 1 cut(s) 267
BsnI GGCC 2 cut(s) 30, 265
Bsp119I TTCGAA 1 cut(s) 387
Bsp143I GATC 1 cut(s) 48
BspACI CCGC 4 cut(s) 213, 266, 376, 378
BspANI GGCC 2 cut(s) 30, 265
BspCNI CTCAG 1 cut(s) 121
BspFNI CGCG 2 cut(s) 268, 378
BspHI TCATGA 1 cut(s) 518
BspT104I TTCGAA 1 cut(s) 387
BssECI CCNNGG 2 cut(s) 169, 376
BssMI GATC 1 cut(s) 48
Bst2UI CCWGG 3 cut(s) 12, 171, 460
Bst4CI ACNGT 1 cut(s) 88
BstBI TTCGAA 1 cut(s) 387
BstC8I GCNNGC 2 cut(s) 303, 425
BstDEI CTNAG 2 cut(s) 52, 129
BstDSI CCRYGG 1 cut(s) 376
BstF5I GGATG 2 cut(s) 82, 158
BstFNI CGCG 2 cut(s) 268, 378
BstKTI GATC 1 cut(s) 51
BstMAI GTCTC 1 cut(s) 222
BstMBI GATC 1 cut(s) 48
BstNI CCWGG 3 cut(s) 12, 171, 460
BstSCI CCNGG 3 cut(s) 10, 169, 458
BstUI CGCG 2 cut(s) 268, 378
BstV2I GAAGAC 1 cut(s) 347
BstX2I RGATCY 1 cut(s) 48
BstYI RGATCY 1 cut(s) 48
Bsu36I CCTNAGG 1 cut(s) 129
BsuRI GGCC 2 cut(s) 30, 265
BtgI CCRYGG 1 cut(s) 376
BtgZI GCGATG 1 cut(s) 261
BtsCI GGATG 2 cut(s) 82, 158
BtsI GCAGTG 1 cut(s) 411
BtsIMutI CAGTG 1 cut(s) 411
Cac8I GCNNGC 2 cut(s) 303, 425
CaiI CAGNNNCTG 1 cut(s) 302
CciI TCATGA 1 cut(s) 518
Cfr13I GGNCC 1 cut(s) 263
Cfr42I CCGCGG 1 cut(s) 379
Csp6I GTAC 2 cut(s) 189, 506
CviAII CATG 3 cut(s) 21, 32, 519
CviQI GTAC 2 cut(s) 189, 506
DdeI CTNAG 2 cut(s) 52, 129
DpnI GATC 1 cut(s) 50
DpnII GATC 1 cut(s) 48
Eco81I CCTNAGG 1 cut(s) 129
EcoRII CCWGG 3 cut(s) 10, 169, 458
FaeI CATG 3 cut(s) 24, 35, 522
FaiI YATR 7 cut(s) 22, 33, 274, 468, 479, 483, 520
FaqI GGGAC 1 cut(s) 267
FatI CATG 3 cut(s) 20, 31, 518
Fnu4HI GCNGC 1 cut(s) 266
FokI GGATG 2 cut(s) 89, 145
Fsp4HI GCNGC 1 cut(s) 266
GluI GCNGC 1 cut(s) 266
GsuI CTGGAG 1 cut(s) 442
HaeIII GGCC 2 cut(s) 30, 265
Hin1II CATG 3 cut(s) 24, 35, 522
HinfI GANTC 2 cut(s) 334, 455
HphI GGTGA 3 cut(s) 185, 343, 392
Hpy166II GTNNAC 1 cut(s) 411
Hpy188I TCNGA 1 cut(s) 298
Hpy188III TCNNGA 4 cut(s) 74, 128, 501, 519
Hpy8I GTNNAC 1 cut(s) 411
HpyAV CCTTC 1 cut(s) 70
HpyCH4III ACNGT 1 cut(s) 88
HpyCH4IV ACGT 1 cut(s) 191
HpyCH4V TGCA 3 cut(s) 305, 320, 404
HpyF3I CTNAG 2 cut(s) 52, 129
HpySE526I ACGT 1 cut(s) 191
Hsp92II CATG 3 cut(s) 24, 35, 522
KspI CCGCGG 1 cut(s) 379
Kzo9I GATC 1 cut(s) 48
LmnI GCTCC 1 cut(s) 4
MaeII ACGT 1 cut(s) 191
MaeIII GTNAC 1 cut(s) 331
MalI GATC 1 cut(s) 50
MboI GATC 1 cut(s) 48
MboII GAAGA 2 cut(s) 269, 347
MfeI CAATTG 1 cut(s) 306
MflI RGATCY 1 cut(s) 48
MluCI AATT 6 cut(s) 112, 306, 326, 347, 368, 429
MlyI GAGTC 2 cut(s) 328, 449
MnlI CCTC 2 cut(s) 33, 124
MseI TTAA 1 cut(s) 372
MspA1I CMGCKG 1 cut(s) 378
MspR9I CCNGG 3 cut(s) 12, 171, 460
MunI CAATTG 1 cut(s) 306
MvaI CCWGG 3 cut(s) 12, 171, 460
MvnI CGCG 2 cut(s) 268, 378
NdeII GATC 1 cut(s) 48
NlaIII CATG 3 cut(s) 24, 35, 522
NmuCI GTSAC 1 cut(s) 331
NspV TTCGAA 1 cut(s) 387
PagI TCATGA 1 cut(s) 518
PkrI GCNGC 1 cut(s) 267
PleI GAGTC 2 cut(s) 328, 449
PpsI GAGTC 2 cut(s) 328, 449
Psp6I CCWGG 3 cut(s) 10, 169, 458
PspGI CCWGG 3 cut(s) 10, 169, 458
PspPI GGNCC 1 cut(s) 263
PstNI CAGNNNCTG 1 cut(s) 302
PsuI RGATCY 1 cut(s) 48
RsaI GTAC 2 cut(s) 190, 507
RsaNI GTAC 2 cut(s) 189, 506
SacII CCGCGG 1 cut(s) 379
SaqAI TTAA 1 cut(s) 372
SatI GCNGC 1 cut(s) 266
Sau3AI GATC 1 cut(s) 48
Sau96I GGNCC 1 cut(s) 263
SchI GAGTC 2 cut(s) 328, 449
ScrFI CCNGG 3 cut(s) 12, 171, 460
SetI ASST 6 cut(s) 9, 16, 105, 175, 194, 464
Sfr303I CCGCGG 1 cut(s) 379
SfuI TTCGAA 1 cut(s) 387
SgrBI CCGCGG 1 cut(s) 379
Sse9I AATT 6 cut(s) 112, 306, 326, 347, 368, 429
SsiI CCGC 4 cut(s) 213, 266, 376, 378
StyD4I CCNGG 3 cut(s) 10, 169, 458
TaaI ACNGT 1 cut(s) 88
TaiI ACGT 1 cut(s) 194
TaqI TCGA 2 cut(s) 387, 500
TasI AATT 6 cut(s) 112, 306, 326, 347, 368, 429
TatI WGTACW 1 cut(s) 505
TauI GCSGC 1 cut(s) 268
Tru1I TTAA 1 cut(s) 372
Tru9I TTAA 1 cut(s) 372
TscAI CASTG 1 cut(s) 411
TseFI GTSAC 1 cut(s) 331
Tsp45I GTSAC 1 cut(s) 331
TspDTI ATGAA 1 cut(s) 9
TspRI CASTG 1 cut(s) 411
XapI RAATTY 2 cut(s) 347, 368
XcmI CCANNNNNNNNNTGG 2 cut(s) 18, 215
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.