Rroxscaffold_1G00014580

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000220
Physical Location & Seq
Forward (+)
18106383 .. 18122746
16364 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00014580.1

Sequence Viewer

Length: 543 bp
ATGGACTGGCCCAACCAAAATGGCTATTCTAAATTTCATGGTGTATTCAAAAGGTTCAACTGTGTTTTTGAAGTCTGTAGATGCTTCACATATGAAAAAAATGCTCAGTACATAGAACTATTGTTAGATGAGATTATCCCAAGATGTTGGACCAGAAAATGCTGTCCAGATTGTCACGATAATGCATCAGCATTTAAAAAGGCCAAAAGGGAACTACATAAAAAATATCCACCGTTCCGGATCCCGTGTGCTGCCCATCGCATCGATTTGATATTTGAAGATATCGTGAAGCAAGAAACTGTTTCCACTGTCGTCAAATGGTCTCAAAGTGTAACTAACTACATCTACAATCATGGTTGGGTACTGGTTGAAATGAGAAGCATCAAGAAGGGAGATTTGATTCGACCAGGTAAAACTCGATTTGCGACAAATCACATTGCCATCAACAGTATCTTGAAGAAGAAATCTGATTTGAGAGAAAATTATTTGCAAGTAGCGCATGGAATGAGAATGCAGCGAGCAGGACCAAAGATGGCAAAATGA
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
DUF659 Dimer_Tnp_hAT zf-BED

Protein Analysis

180

Amino Acids

21.18

Weight (kDa)

9.61

Isoelectric Point (pI)

28.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF659 PF04937 28 - 110 1.6e-08 Domain of unknown function (DUF659)
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: OG0000220)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g14882 FvH4_1g25271 FvH4_2g02251 FvH4_2g02251 FvH4_2g12511 FvH4_3g12392 FvH4_4g13981 FvH4_5g27011 FvH4_5g27012 FvH4_6g04722 FvH4_6g19751 FvH4_6g31371 FvH4_6g35011 FvH4_7g02741 FvH4_7g02741 FvH4_7g11332
malus_domestica MD00G1003900.v1.1 MD00G1004000.v1.1 MD10G1094800.v1.1 MD13G1044700.v1.1 MD13G1176700.v1.1 MD15G1343300.v1.1 MD15G1444800.v1.1
prunus_persica Prupe.1G199600_v2.0.a1 Prupe.1G215800_v2.0.a1 Prupe.3G104200_v2.0.a1
pyrus_communis pycom06g06750 pycom08g00120 pycom08g00130 pycom10g02160 pycom11g16040 pycom11g16050 pycom11g17730 pycom15g19390 pycom15g25050 pycom15g25060 pycom16g24700 pycom16g24710 pycom5153684g00040
rosa_chinensis RchiOBHm_Chr1g0361971 RchiOBHm_Chr1g0383751 RchiOBHm_Chr2g0121831 RchiOBHm_Chr2g0121841 RchiOBHm_Chr2g0168971 RchiOBHm_Chr4g0384811 RchiOBHm_Chr4g0385621 RchiOBHm_Chr5g0012611 RchiOBHm_Chr6g0271241 RchiOBHm_Chr6g0289011 RchiOBHm_Chr7g0216171 RchiOBHm_Chr7g0216181 RchiOBHm_Chr7g0239421
rosa_laevigata RLG00000001765 RLG00000002860 RLG00000003609 RLG00000004743 RLG00000018385 RLG00000022782 RLG00000024093 RLG00000035412
rosa_multiflora Rmu_sc0000239.1_g000042 Rmu_sc0000292.1_g000005 Rmu_sc0000414.1_g000004 Rmu_sc0000441.1_g000099 Rmu_sc0000578.1_g000002 Rmu_sc0000666.1_g000019 Rmu_sc0000690.1_g000008 Rmu_sc0000821.1_g000011 Rmu_sc0001068.1_g000021 Rmu_sc0001696.1_g000017 Rmu_sc0001851.1_g000006 Rmu_sc0001940.1_g000018 Rmu_sc0002322.1_g000025 Rmu_sc0002343.1_g000030 Rmu_sc0002351.1_g000020 Rmu_sc0002371.1_g000025 Rmu_sc0002530.1_g000003 Rmu_sc0003206.1_g000001 Rmu_sc0003556.1_g000020 Rmu_sc0003906.1_g000002 Rmu_sc0004122.1_g000002 Rmu_sc0004283.1_g000013 Rmu_sc0004657.1_g000053 Rmu_sc0004657.1_g000054 Rmu_sc0004920.1_g000006 Rmu_sc0004990.1_g000001 Rmu_sc0005046.1_g000011 Rmu_sc0005134.1_g000006 Rmu_sc0005281.1_g000004 Rmu_sc0005704.1_g000010 Rmu_sc0005767.1_g000009 Rmu_sc0005789.1_g000031 Rmu_sc0005849.1_g000010 Rmu_sc0006736.1_g000020 Rmu_sc0006754.1_g000001 Rmu_sc0007663.1_g000010 Rmu_sc0007705.1_g000005 Rmu_sc0007883.1_g000003 Rmu_sc0007941.1_g000003 Rmu_sc0009618.1_g000009 Rmu_sc0009840.1_g000007 Rmu_sc0010800.1_g000007 Rmu_sc0011620.1_g000005 Rmu_sc0013423.1_g000002 Rmu_sc0014544.1_g000001 Rmu_sc0015323.1_g000004 Rmu_sc0023737.1_g000001 Rmu_sc0024470.1_g000005 Rmu_sc0032114.1_g000001 Rmu_ssc0000372.1_g000050 Rmu_ssc0000420.1_g000006
rosa_roxburghii Rroxscaffold_1G00014580 Rroxscaffold_1G00050290 Rroxscaffold_2G00093920 Rroxscaffold_2G00131720 Rroxscaffold_5G00351350 Rroxscaffold_5G00386210 Rroxscaffold_6G00392840 Rroxscaffold_6G00404480 Rroxscaffold_6G00405300
rosa_rugosa Rorug02G0533800 Rorug03G0200600 Rorug05G0329600 Rorug07G0139200 Rorug07G0341500 Rorug07G0341600 Rorug07G0341700 Rorug07G0341800
rosa_samantha Rh2BG114900 Rh2BG222900 Rh2DG253700 Rh3CG200000 Rh4BG186200 Rh4DG156200 Rh5AG145800 Rh5BG370600 Rh6AG123800 Rh6BG424900 Rh6DG105300 Rh7AG381900 Rh7CG288100 Rh7CG401400
rosa_wichuraiana Rw0G008270 Rw1G014540 Rw2G043790 Rw6G021690 Rw7G030100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 237
AclWI GGATC 2 cut(s) 235, 248
AcsI RAATTY 1 cut(s) 32
AfaI GTAC 2 cut(s) 110, 363
AgsI TTSAA 6 cut(s) 49, 58, 71, 278, 371, 457
AjnI CCWGG 1 cut(s) 406
Alw26I GTCTC 1 cut(s) 327
AlwI GGATC 2 cut(s) 235, 248
Aor13HI TCCGGA 1 cut(s) 237
AoxI GGCC 2 cut(s) 8, 201
ApeKI GCWGC 2 cut(s) 251, 514
ApoI RAATTY 1 cut(s) 32
AspLEI GCGC 1 cut(s) 499
AspS9I GGNCC 3 cut(s) 9, 150, 524
AvaII GGWCC 2 cut(s) 150, 524
BamHI GGATCC 1 cut(s) 240
BbvI GCAGC 2 cut(s) 238, 526
BccI CCATC 3 cut(s) 264, 449, 526
BciT130I CCWGG 1 cut(s) 408
BcoDI GTCTC 1 cut(s) 327
BfmI CTRYAG 1 cut(s) 76
BisI GCNGC 2 cut(s) 252, 515
BlsI GCNGC 2 cut(s) 253, 516
Bme1390I CCNGG 1 cut(s) 408
Bme18I GGWCC 2 cut(s) 150, 524
BmgT120I GGNCC 3 cut(s) 9, 150, 524
BmiI GGNNCC 1 cut(s) 242
BmrFI CCNGG 1 cut(s) 408
BmsI GCATC 4 cut(s) 71, 194, 270, 390
Bsa29I ATCGAT 1 cut(s) 264
BsaI GGTCTC 1 cut(s) 327
BsaWI WCCGGW 1 cut(s) 237
Bse1I ACTGG 2 cut(s) 11, 369
Bse3DI GCAATG 1 cut(s) 435
BseAI TCCGGA 1 cut(s) 237
BseBI CCWGG 1 cut(s) 408
BseCI ATCGAT 1 cut(s) 264
BseMI GCAATG 1 cut(s) 435
BseMII CTCAG 1 cut(s) 119
BseNI ACTGG 2 cut(s) 11, 369
BseXI GCAGC 2 cut(s) 238, 526
BshFI GGCC 2 cut(s) 10, 203
BshVI ATCGAT 1 cut(s) 264
BsiSI CCGG 1 cut(s) 238
BsmAI GTCTC 1 cut(s) 327
BsmI GAATGC 1 cut(s) 516
BsnI GGCC 2 cut(s) 10, 203
Bso31I GGTCTC 1 cut(s) 327
Bsp13I TCCGGA 1 cut(s) 237
Bsp143I GATC 1 cut(s) 240
BspANI GGCC 2 cut(s) 10, 203
BspCNI CTCAG 1 cut(s) 118
BspDI ATCGAT 1 cut(s) 264
BspEI TCCGGA 1 cut(s) 237
BspLI GGNNCC 1 cut(s) 242
BspPI GGATC 2 cut(s) 235, 248
BspTNI GGTCTC 1 cut(s) 327
BsrDI GCAATG 1 cut(s) 435
BsrI ACTGG 2 cut(s) 11, 369
BssMI GATC 1 cut(s) 240
Bst2UI CCWGG 1 cut(s) 408
Bst4CI ACNGT 5 cut(s) 62, 234, 301, 310, 449
BstC8I GCNNGC 1 cut(s) 519
BstDEI CTNAG 1 cut(s) 105
BstHHI GCGC 1 cut(s) 499
BstKTI GATC 1 cut(s) 243
BstMAI GTCTC 1 cut(s) 327
BstMBI GATC 1 cut(s) 240
BstMWI GCNNNNNNNGC 1 cut(s) 496
BstNI CCWGG 1 cut(s) 408
BstSCI CCNGG 1 cut(s) 406
BstSFI CTRYAG 1 cut(s) 76
BstV1I GCAGC 2 cut(s) 238, 526
BstX2I RGATCY 1 cut(s) 240
BstXI CCANNNNNNTGG 1 cut(s) 147
BstYI RGATCY 1 cut(s) 240
Bsu15I ATCGAT 1 cut(s) 264
BsuRI GGCC 2 cut(s) 10, 203
BsuTUI ATCGAT 1 cut(s) 264
BtgZI GCGATG 1 cut(s) 242
BtsIMutI CAGTG 1 cut(s) 306
Cac8I GCNNGC 1 cut(s) 519
CfoI GCGC 1 cut(s) 499
Cfr13I GGNCC 3 cut(s) 9, 150, 524
ClaI ATCGAT 1 cut(s) 264
CsiI ACCWGGT 1 cut(s) 406
Csp6I GTAC 2 cut(s) 109, 362
CviAII CATG 3 cut(s) 38, 353, 500
CviJI RGCY 3 cut(s) 10, 24, 203
CviKI_1 RGCY 3 cut(s) 10, 24, 203
CviQI GTAC 2 cut(s) 109, 362
DdeI CTNAG 1 cut(s) 105
DpnI GATC 1 cut(s) 242
DpnII GATC 1 cut(s) 240
DraI TTTAAA 1 cut(s) 196
Eco31I GGTCTC 1 cut(s) 327
Eco32I GATATC 1 cut(s) 283
Eco47I GGWCC 2 cut(s) 150, 524
EcoRII CCWGG 1 cut(s) 406
EcoRV GATATC 1 cut(s) 283
EcoT22I ATGCAT 1 cut(s) 187
FaeI CATG 3 cut(s) 41, 356, 503
FaiI YATR 7 cut(s) 39, 91, 93, 113, 219, 354, 501
FatI CATG 3 cut(s) 37, 352, 499
FauNDI CATATG 1 cut(s) 91
Fnu4HI GCNGC 2 cut(s) 252, 515
Fsp4HI GCNGC 2 cut(s) 252, 515
GlaI GCGC 1 cut(s) 498
GluI GCNGC 2 cut(s) 252, 515
HaeIII GGCC 2 cut(s) 10, 203
HapII CCGG 1 cut(s) 238
HhaI GCGC 1 cut(s) 499
Hin1II CATG 3 cut(s) 41, 356, 503
Hin6I GCGC 1 cut(s) 497
HinP1I GCGC 1 cut(s) 497
HinfI GANTC 1 cut(s) 400
HpaII CCGG 1 cut(s) 238
Hpy188I TCNGA 1 cut(s) 469
Hpy188III TCNNGA 6 cut(s) 167, 176, 238, 286, 385, 454
HpyAV CCTTC 1 cut(s) 382
HpyCH4III ACNGT 5 cut(s) 62, 234, 301, 310, 449
HpyCH4V TGCA 3 cut(s) 185, 490, 514
HpyF10VI GCNNNNNNNGC 1 cut(s) 496
HpyF3I CTNAG 1 cut(s) 105
Hsp92II CATG 3 cut(s) 41, 356, 503
HspAI GCGC 1 cut(s) 497
Kpn2I TCCGGA 1 cut(s) 237
Kzo9I GATC 1 cut(s) 240
LpnPI CCDG 7 cut(s) 166, 180, 251, 350, 393, 420, 507
Lsp1109I GCAGC 2 cut(s) 238, 526
LweI GCATC 4 cut(s) 71, 194, 270, 390
MabI ACCWGGT 1 cut(s) 406
MaeIII GTNAC 2 cut(s) 173, 331
MalI GATC 1 cut(s) 242
MboI GATC 1 cut(s) 240
MboII GAAGA 3 cut(s) 290, 469, 472
MflI RGATCY 1 cut(s) 240
MluCI AATT 2 cut(s) 32, 481
MmeI TCCRAC 1 cut(s) 128
Mph1103I ATGCAT 1 cut(s) 187
MroI TCCGGA 1 cut(s) 237
MseI TTAA 1 cut(s) 195
MslI CAYNNNNRTG 1 cut(s) 180
MspI CCGG 1 cut(s) 238
MspR9I CCNGG 1 cut(s) 408
Mva1269I GAATGC 1 cut(s) 516
MvaI CCWGG 1 cut(s) 408
MwoI GCNNNNNNNGC 1 cut(s) 496
NdeI CATATG 1 cut(s) 91
NdeII GATC 1 cut(s) 240
NlaIII CATG 3 cut(s) 41, 356, 503
NlaIV GGNNCC 1 cut(s) 242
NmuCI GTSAC 1 cut(s) 173
NsiI ATGCAT 1 cut(s) 187
PctI GAATGC 1 cut(s) 516
PfeI GAWTC 1 cut(s) 400
PkrI GCNGC 2 cut(s) 253, 516
Psp6I CCWGG 1 cut(s) 406
PspGI CCWGG 1 cut(s) 406
PspN4I GGNNCC 1 cut(s) 242
PspPI GGNCC 3 cut(s) 9, 150, 524
PsuI RGATCY 1 cut(s) 240
RsaI GTAC 2 cut(s) 110, 363
RsaNI GTAC 2 cut(s) 109, 362
RseI CAYNNNNRTG 1 cut(s) 180
SaqAI TTAA 1 cut(s) 195
SatI GCNGC 2 cut(s) 252, 515
Sau3AI GATC 1 cut(s) 240
Sau96I GGNCC 3 cut(s) 9, 150, 524
ScrFI CCNGG 1 cut(s) 408
SetI ASST 2 cut(s) 56, 412
SexAI ACCWGGT 1 cut(s) 406
SfaNI GCATC 4 cut(s) 71, 194, 270, 390
SfcI CTRYAG 1 cut(s) 76
SinI GGWCC 2 cut(s) 150, 524
SmiMI CAYNNNNRTG 1 cut(s) 180
Sse9I AATT 2 cut(s) 32, 481
StyD4I CCNGG 1 cut(s) 406
TaaI ACNGT 5 cut(s) 62, 234, 301, 310, 449
TaqI TCGA 3 cut(s) 264, 403, 418
TasI AATT 2 cut(s) 32, 481
TatI WGTACW 1 cut(s) 108
TfiI GAWTC 1 cut(s) 400
Tru1I TTAA 1 cut(s) 195
Tru9I TTAA 1 cut(s) 195
TscAI CASTG 1 cut(s) 313
TseFI GTSAC 1 cut(s) 173
TseI GCWGC 2 cut(s) 251, 514
Tsp45I GTSAC 1 cut(s) 173
TspDTI ATGAA 2 cut(s) 26, 108
TspRI CASTG 1 cut(s) 313
VpaK11BI GGWCC 2 cut(s) 150, 524
XapI RAATTY 1 cut(s) 32
Zsp2I ATGCAT 1 cut(s) 187
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.