Rroxscaffold_4G00299670

source UniProtKB

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000178
Physical Location & Seq
Forward (+)
19615965 .. 19621720
5756 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00299670.1

Sequence Viewer

Length: 777 bp
ATGGTGATGGATAAGAGTTGGATTCAACTAGCCACTAGGAGGAAGCCAGAATATATTAAGGGTGTGAAAGAATTCATTGATTTTGCTGCTGCCCACATGAAGCCAGGGTCCAACCTAATCCAATGTTCGTGTTTAAATTGTAACAATTTTCGTTCTAGACCTCTAGGCGAAGTTGAAGATCATTTATATTCGTATGGAATGGTTATGCATTACATTAAGTGGACAAAACATGGGGAAGAAGAGTCTGATGATGAATTGGAAAATGATGACATAATAGAAGAGGACAATGGAGAGGATGTTGAGGAAGATGTTGACGATGAAGTTGAAATGATAAAAGAATATCAGGCTGGTGCTTTTGCTGATGACAAGGTGTCTCAAGAGCATTCTCATAGTAGAGAAGAAAGTAAGTTTAGTCGATTGATGGGGGATGCAGAGCAAGAGTTGTATCCTGGTTGTCGAAAGTTCACCAAATTATCATTTATTGTGAAGTTACTTCACTTAAAGATAATGAACTCTTGTAGCAACAAGTTTTTTACAATGTTGCTTGAGTTATTAAAAGAGTCATTTCCTGATGGTAACACCTTGCCTATTTCTTATTACGCATCTAAGAAGATTATCCGAGACTTGGGTGTTCATTATGATAAGATCCATGTATGTAAAAATGATTGTGTTCTTTTCTGGGACGAGTATGCAGACAATCAGGAATGTCCAAAATGTCATGAACCTAGGTATGCGCCTAACAATGGCAAGAAGACAAAGACTCCCCAAAGGTCATGA
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
DUF4216 DUF4218 Transpos_assoc Transposase_21

Protein Analysis

258

Amino Acids

30.03

Weight (kDa)

5.2

Isoelectric Point (pI)

43.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transpos_assoc PF13963 5 - 79 3e-20 Transposase-associated domain
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: OG0000178)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G40087 AT3G30200
fragaria_vesca FvH4_1g23271 FvH4_3g22812 FvH4_3g22813 FvH4_3g31042 FvH4_3g31043 FvH4_7g03653
malus_domestica MD05G1321200.v1.1 MD09G1027200.v1.1 MD15G1434900.v1.1 MD15G1435000.v1.1 MD15G1435100.v1.1
prunus_persica Prupe.1G578800_v2.0.a1 Prupe.1G578800_v2.0.a1 Prupe.1G578800_v2.0.a1 Prupe.2G062700_v2.0.a1 Prupe.5G033400_v2.0.a1 Prupe.7G022900_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1
pyrus_communis pycom03g07600 pycom03g11360 pycom05g02870 pycom111g02130 pycom15g38370 pycom15g38380
rosa_chinensis RchiOBHm_Chr1g0346371 RchiOBHm_Chr4g0402051 RchiOBHm_Chr4g0414991 RchiOBHm_Chr5g0051011 RchiOBHm_Chr5g0051181 RchiOBHm_Chr6g0273071 RchiOBHm_Chr7g0218301 RchiOBHm_Chr7g0241081
rosa_laevigata RLG00000007709 RLG00000008953 RLG00000012400 RLG00000012401 RLG00000013805 RLG00000014199 RLG00000014726 RLG00000017792 RLG00000017793 RLG00000018860 RLG00000020749 RLG00000030708 RLG00000033507
rosa_multiflora Rmu_co8373761.1_g000001 Rmu_sc0000028.1_g000023 Rmu_sc0000235.1_g000040 Rmu_sc0000293.1_g000017 Rmu_sc0000293.1_g000019 Rmu_sc0000651.1_g000012 Rmu_sc0000870.1_g000051 Rmu_sc0001167.1_g000031 Rmu_sc0001373.1_g000039 Rmu_sc0001861.1_g000055 Rmu_sc0001891.1_g000038 Rmu_sc0001909.1_g000015 Rmu_sc0002500.1_g000002 Rmu_sc0002868.1_g000036 Rmu_sc0002868.1_g000038 Rmu_sc0002868.1_g000039 Rmu_sc0003379.1_g000001 Rmu_sc0003778.1_g000005 Rmu_sc0003778.1_g000006 Rmu_sc0010475.1_g000011 Rmu_sc0015271.1_g000002 Rmu_sc0015271.1_g000003 Rmu_sc0017962.1_g000001 Rmu_sc0017962.1_g000003 Rmu_sc0022129.1_g000004 Rmu_sc0025694.1_g000003 Rmu_sc0025694.1_g000004
rosa_roxburghii Rroxscaffold_1G00031640 Rroxscaffold_1G00047620 Rroxscaffold_1G00047630 Rroxscaffold_1G00050560 Rroxscaffold_1G00050570 Rroxscaffold_1G00054800 Rroxscaffold_1G00055890 Rroxscaffold_2G00108230 Rroxscaffold_3G00240860 Rroxscaffold_4G00299670 Rroxscaffold_4G00299680 Rroxscaffold_4G00299690 Rroxscaffold_4G00306320 Rroxscaffold_4G00306340 Rroxscaffold_5G00341060 Rroxscaffold_5G00342000 Rroxscaffold_5G00355660 Rroxscaffold_5G00357170 Rroxscaffold_6G00399490 Rroxscaffold_6G00408400 Rroxscaffold_7G00189260 Rroxscaffold_7G00199620 Rroxscaffold_7G00215470
rosa_rugosa Rorug02G0117600 Rorug02G0117700 Rorug04G0116400 Rorug06G0103200
rosa_samantha Rh1AG062800 Rh1AG073700 Rh1CG091700 Rh1DG077600 Rh1DG077700 Rh1DG077800 Rh1DG117400 Rh1DG146300 Rh2BG193300 Rh2BG193400 Rh2BG265300 Rh2BG413400 Rh3CG365500 Rh4AG315400 Rh4BG323100 Rh4BG323200 Rh4CG071400 Rh4CG142500 Rh4CG203300 Rh4CG338300 Rh4DG079300 Rh4DG079400 Rh4DG217000 Rh4DG217100 Rh4DG217200 Rh4DG217300 Rh5AG128300 Rh5AG239900 Rh5AG465900 Rh5BG348600 Rh5BG387900 Rh5BG388000 Rh5CG181800 Rh5CG181900 Rh5CG271000 Rh5CG271100 Rh5DG127100 Rh5DG138400 Rh5DG168200 Rh5DG168300 Rh5DG361500 Rh5DG460400 Rh6AG045400 Rh6AG058600 Rh6BG275000 Rh6CG089700 Rh6DG182300 Rh6DG182400 Rh6DG207300 Rh6DG207400 Rh7BG374000 Rh7BG390600 Rh7BG390700 Rh7BG390800
rosa_wichuraiana Rw0G018690 Rw1G007320 Rw4G008510 Rw5G011510 Rw5G021830 Rw6G024150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 640
AcsI RAATTY 1 cut(s) 71
AfiI CCNNNNNNNGG 3 cut(s) 39, 625, 743
AgsI TTSAA 3 cut(s) 26, 176, 326
AhdI GACNNNNNGTC 1 cut(s) 370
AjnI CCWGG 2 cut(s) 103, 448
Alw26I GTCTC 2 cut(s) 378, 615
AlwI GGATC 1 cut(s) 640
ApeKI GCWGC 2 cut(s) 86, 89
ApoI RAATTY 1 cut(s) 71
Asp700I GAANNNNTTC 1 cut(s) 71
AspA2I CCTAGG 1 cut(s) 725
AspLEI GCGC 1 cut(s) 736
AspS9I GGNCC 1 cut(s) 108
AsuHPI GGTGA 2 cut(s) 16, 457
AvaII GGWCC 1 cut(s) 108
AvrII CCTAGG 1 cut(s) 725
BbsI GAAGAC 1 cut(s) 758
BbvI GCAGC 2 cut(s) 73, 76
BccI CCATC 2 cut(s) 415, 566
BciT130I CCWGG 2 cut(s) 105, 450
BciVI GTATCC 1 cut(s) 456
BcoDI GTCTC 2 cut(s) 378, 615
BfaI CTAG 5 cut(s) 29, 36, 156, 164, 726
BfuI GTATCC 1 cut(s) 456
BisI GCNGC 2 cut(s) 87, 90
BlnI CCTAGG 1 cut(s) 725
BlsI GCNGC 2 cut(s) 88, 91
Bme1390I CCNGG 2 cut(s) 105, 450
Bme18I GGWCC 1 cut(s) 108
BmeRI GACNNNNNGTC 1 cut(s) 370
BmgT120I GGNCC 1 cut(s) 108
BmiI GGNNCC 1 cut(s) 109
BmrFI CCNGG 2 cut(s) 105, 450
BmsI GCATC 2 cut(s) 418, 611
BpiI GAAGAC 1 cut(s) 758
BpuEI CTTGAG 2 cut(s) 360, 566
BsaJI CCNNGG 2 cut(s) 104, 725
BsaXI ACNNNNNCTCC 4 cut(s) 282, 312, 745, 775
Bsc4I CCNNNNNNNGG 3 cut(s) 39, 625, 743
BseBI CCWGG 2 cut(s) 105, 450
BseDI CCNNGG 2 cut(s) 104, 725
BseGI GGATG 2 cut(s) 301, 433
BseLI CCNNNNNNNGG 3 cut(s) 39, 625, 743
BseXI GCAGC 2 cut(s) 73, 76
BslFI GGGAC 1 cut(s) 695
BslI CCNNNNNNNGG 3 cut(s) 39, 625, 743
BsmAI GTCTC 2 cut(s) 378, 615
BsmFI GGGAC 1 cut(s) 695
BsmI GAATGC 1 cut(s) 382
Bsp143I GATC 2 cut(s) 178, 645
BspHI TCATGA 2 cut(s) 718, 773
BspLI GGNNCC 1 cut(s) 109
BspPI GGATC 1 cut(s) 640
BssECI CCNNGG 2 cut(s) 104, 725
BssMI GATC 2 cut(s) 178, 645
BssT1I CCWWGG 1 cut(s) 725
Bst2UI CCWGG 2 cut(s) 105, 450
Bst6I CTCTTC 2 cut(s) 234, 273
BstDEI CTNAG 1 cut(s) 606
BstF5I GGATG 2 cut(s) 301, 433
BstHHI GCGC 1 cut(s) 736
BstKTI GATC 2 cut(s) 181, 648
BstMAI GTCTC 2 cut(s) 378, 615
BstMBI GATC 2 cut(s) 178, 645
BstNI CCWGG 2 cut(s) 105, 450
BstSCI CCNGG 2 cut(s) 103, 448
BstV1I GCAGC 2 cut(s) 73, 76
BstV2I GAAGAC 1 cut(s) 758
BstX2I RGATCY 1 cut(s) 645
BstYI RGATCY 1 cut(s) 645
BsuI GTATCC 1 cut(s) 456
BtsCI GGATG 2 cut(s) 301, 433
CciI TCATGA 2 cut(s) 718, 773
CfoI GCGC 1 cut(s) 736
Cfr13I GGNCC 1 cut(s) 108
CviAII CATG 5 cut(s) 97, 230, 650, 719, 774
CviJI RGCY 4 cut(s) 32, 46, 103, 347
CviKI_1 RGCY 4 cut(s) 32, 46, 103, 347
DdeI CTNAG 1 cut(s) 606
DpnI GATC 2 cut(s) 180, 647
DpnII GATC 2 cut(s) 178, 645
DraI TTTAAA 1 cut(s) 135
DriI GACNNNNNGTC 1 cut(s) 370
Eam1104I CTCTTC 2 cut(s) 234, 273
Eam1105I GACNNNNNGTC 1 cut(s) 370
EarI CTCTTC 2 cut(s) 234, 273
Eco130I CCWWGG 1 cut(s) 725
Eco47I GGWCC 1 cut(s) 108
EcoRI GAATTC 1 cut(s) 71
EcoRII CCWGG 2 cut(s) 103, 448
EcoT14I CCWWGG 1 cut(s) 725
EcoT22I ATGCAT 1 cut(s) 210
ErhI CCWWGG 1 cut(s) 725
FaeI CATG 5 cut(s) 100, 233, 653, 722, 777
FaqI GGGAC 1 cut(s) 695
FatI CATG 5 cut(s) 96, 229, 649, 718, 773
Fnu4HI GCNGC 2 cut(s) 87, 90
FokI GGATG 2 cut(s) 308, 440
Fsp4HI GCNGC 2 cut(s) 87, 90
FspBI CTAG 5 cut(s) 29, 36, 156, 164, 726
GlaI GCGC 1 cut(s) 735
GluI GCNGC 2 cut(s) 87, 90
HhaI GCGC 1 cut(s) 736
Hin1II CATG 5 cut(s) 100, 233, 653, 722, 777
Hin6I GCGC 1 cut(s) 734
HinP1I GCGC 1 cut(s) 734
HincII GTYRAC 1 cut(s) 313
HindII GTYRAC 1 cut(s) 313
HinfI GANTC 4 cut(s) 22, 242, 560, 760
HphI GGTGA 2 cut(s) 16, 457
Hpy166II GTNNAC 3 cut(s) 222, 313, 465
Hpy188I TCNGA 2 cut(s) 247, 620
Hpy188III TCNNGA 6 cut(s) 156, 377, 569, 701, 719, 774
Hpy8I GTNNAC 3 cut(s) 222, 313, 465
HpyCH4V TGCA 3 cut(s) 208, 431, 692
HpyF3I CTNAG 1 cut(s) 606
Hsp92II CATG 5 cut(s) 100, 233, 653, 722, 777
HspAI GCGC 1 cut(s) 734
Kzo9I GATC 2 cut(s) 178, 645
Lsp1109I GCAGC 2 cut(s) 73, 76
LweI GCATC 2 cut(s) 418, 611
MaeI CTAG 5 cut(s) 29, 36, 156, 164, 726
MaeIII GTNAC 3 cut(s) 140, 489, 575
MalI GATC 2 cut(s) 180, 647
MboI GATC 2 cut(s) 178, 645
MboII GAAGA 8 cut(s) 188, 248, 251, 290, 317, 410, 622, 763
MflI RGATCY 1 cut(s) 645
MluCI AATT 5 cut(s) 71, 136, 145, 254, 470
MlyI GAGTC 3 cut(s) 251, 569, 754
MmeI TCCRAC 1 cut(s) 135
MnlI CCTC 5 cut(s) 33, 171, 274, 286, 295
Mph1103I ATGCAT 1 cut(s) 210
MroXI GAANNNNTTC 1 cut(s) 71
MseI TTAA 5 cut(s) 57, 134, 216, 500, 554
MspR9I CCNGG 2 cut(s) 105, 450
Mva1269I GAATGC 1 cut(s) 382
MvaI CCWGG 2 cut(s) 105, 450
NdeII GATC 2 cut(s) 178, 645
NlaIII CATG 5 cut(s) 100, 233, 653, 722, 777
NlaIV GGNNCC 1 cut(s) 109
NsiI ATGCAT 1 cut(s) 210
PagI TCATGA 2 cut(s) 718, 773
PctI GAATGC 1 cut(s) 382
PdmI GAANNNNTTC 1 cut(s) 71
PfeI GAWTC 1 cut(s) 22
PkrI GCNGC 2 cut(s) 88, 91
PleI GAGTC 3 cut(s) 250, 568, 754
PpsI GAGTC 3 cut(s) 250, 568, 754
Psp6I CCWGG 2 cut(s) 103, 448
PspGI CCWGG 2 cut(s) 103, 448
PspN4I GGNNCC 1 cut(s) 109
PspPI GGNCC 1 cut(s) 108
PsuI RGATCY 1 cut(s) 645
SaqAI TTAA 5 cut(s) 57, 134, 216, 500, 554
SatI GCNGC 2 cut(s) 87, 90
Sau3AI GATC 2 cut(s) 178, 645
Sau96I GGNCC 1 cut(s) 108
SchI GAGTC 3 cut(s) 251, 569, 754
ScrFI CCNGG 2 cut(s) 105, 450
SetI ASST 7 cut(s) 117, 163, 372, 584, 727, 731, 773
SfaNI GCATC 2 cut(s) 418, 611
SinI GGWCC 1 cut(s) 108
SmlI CTYRAG 2 cut(s) 375, 545
SmoI CTYRAG 2 cut(s) 375, 545
Sse9I AATT 5 cut(s) 71, 136, 145, 254, 470
SspMI CTAG 5 cut(s) 29, 36, 156, 164, 726
StyD4I CCNGG 2 cut(s) 103, 448
StyI CCWWGG 1 cut(s) 725
TaqI TCGA 2 cut(s) 415, 457
TasI AATT 5 cut(s) 71, 136, 145, 254, 470
TfiI GAWTC 1 cut(s) 22
Tru1I TTAA 5 cut(s) 57, 134, 216, 500, 554
Tru9I TTAA 5 cut(s) 57, 134, 216, 500, 554
TseI GCWGC 2 cut(s) 86, 89
TspDTI ATGAA 7 cut(s) 64, 113, 267, 333, 524, 623, 735
VpaK11BI GGWCC 1 cut(s) 108
XapI RAATTY 1 cut(s) 71
XbaI TCTAGA 1 cut(s) 155
XmaJI CCTAGG 1 cut(s) 725
XmnI GAANNNNTTC 1 cut(s) 71
XspI CTAG 5 cut(s) 29, 36, 156, 164, 726
Zsp2I ATGCAT 1 cut(s) 210
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.