Rh6AG013900

DNA recombination

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0000050
Physical Location & Seq
Reverse (-)
1464931 .. 1468875
3945 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG013900.1

Sequence Viewer

Length: 471 bp
ATGCATAGAGCCATCTGGCCTGCTGCATGTTTGATTAATGATGCAATCCACGGATTCATAAGACAAGGGAACTGCGAACTACTCGCATCCAACATTGTTCAAGGAAATATATATGAAATCAGCCGCTTCTTTACAAGCTACAGCCAGCCAAGCTACAAAATAGTACCACACCCTGCACAAATCCATTTCACTGGCAAGACCATTATTAAGCACATTCCAGAATTACCAGCCTCTATTCCACTACATCACTTCTACTTGATCGACTACAGTCTTCTTGCCAGCCGTTCAAAGAACGAAATCCTCTCAGAAAAGAAGATGTACAAGTCACTTTGTGGGGAGACGTTGCACGCACAGTTAATGTTGATGGTATTAGGACAACGCCTCCACCTGCACTTGCGGTTTTTACAAGCCTTAAGGTTACCAAGTATCCAAGTATGTAATCCTAACTTCAAACATGCAATAAGAATATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460
Pfam Domains
Protein Families
DUF223 Helitron_like_N PIF1 REPA_OB_2 Rep_fac-A_C

Protein Analysis

156

Amino Acids

17.91

Weight (kDa)

9.57

Isoelectric Point (pI)

52.22

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000050)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_1g07041 FvH4_2g06412 FvH4_2g08146 FvH4_2g10321 FvH4_2g13511 FvH4_2g20780 FvH4_2g20781 FvH4_2g22171 FvH4_2g25221 FvH4_3g03500 FvH4_3g07130 FvH4_3g10140 FvH4_3g10141 FvH4_3g24350 FvH4_4g08242 FvH4_4g13410 FvH4_4g18140 FvH4_4g22470 FvH4_5g19920 FvH4_5g21501 FvH4_5g26612 FvH4_5g29621 FvH4_5g31990 FvH4_6g00280 FvH4_6g00280 FvH4_6g07190 FvH4_6g07190 FvH4_6g07190 FvH4_6g07190 FvH4_6g07190 FvH4_6g08820 FvH4_6g29600 FvH4_6g30401 FvH4_6g33630 FvH4_7g08310 FvH4_7g08311 FvH4_7g10871 FvH4_7g18890 FvH4_7g18891
malus_domestica MD01G1202900.v1.1 MD02G1249900.v1.1 MD03G1022200.v1.1 MD03G1164900.v1.1 MD04G1002000.v1.1 MD05G1167800.v1.1 MD05G1167900.v1.1 MD05G1202200.v1.1 MD05G1215800.v1.1 MD05G1328800.v1.1 MD07G1020000.v1.1 MD07G1020100.v1.1 MD07G1084700.v1.1 MD08G1007900.v1.1 MD08G1229500.v1.1 MD09G1016000.v1.1 MD09G1184200.v1.1 MD10G1198800.v1.1 MD10G1198900.v1.1 MD11G1203900.v1.1 MD12G1081100.v1.1 MD12G1101700.v1.1 MD13G1126700.v1.1 MD13G1158300.v1.1 MD13G1161500.v1.1 MD14G1083800.v1.1 MD14G1125700.v1.1 MD14G1159700.v1.1 MD14G1159800.v1.1 MD17G1252600.v1.1 MD17G1261900.v1.1 MD17G1262000.v1.1
pyrus_communis pycom01g12270 pycom02g14690 pycom02g17560 pycom02g26880 pycom02g26890 pycom03g13090 pycom03g19990 pycom03g20000 pycom04g00130 pycom04g05050 pycom04g10460 pycom05g27190 pycom07g05970 pycom08g02820 pycom08g11570 pycom09g07420 pycom09g07430 pycom09g08580 pycom10g06760 pycom10g11210 pycom10g11220 pycom11g14380 pycom11g21990 pycom12419g00230 pycom12494g00020 pycom14g06150 pycom15g09750 pycom15g20130 pycom15g27020 pycom15g27230 pycom16g17550 pycom16g18200 pycom5153684g00260 pycom520g00040
rosa_chinensis RchiOBHm_Chr1g0320331 RchiOBHm_Chr1g0329871 RchiOBHm_Chr1g0339991 RchiOBHm_Chr1g0371171 RchiOBHm_Chr1g0378741 RchiOBHm_Chr1g0378751 RchiOBHm_Chr1g0379271 RchiOBHm_Chr2g0122381 RchiOBHm_Chr2g0133251 RchiOBHm_Chr2g0133271 RchiOBHm_Chr2g0133331 RchiOBHm_Chr2g0135141 RchiOBHm_Chr2g0141711 RchiOBHm_Chr2g0145531 RchiOBHm_Chr2g0149141 RchiOBHm_Chr2g0149151 RchiOBHm_Chr2g0150581 RchiOBHm_Chr2g0159361 RchiOBHm_Chr2g0162161 RchiOBHm_Chr2g0174211 RchiOBHm_Chr3g0484061 RchiOBHm_Chr3g0491361 RchiOBHm_Chr4g0413141 RchiOBHm_Chr4g0444601 RchiOBHm_Chr5g0004901 RchiOBHm_Chr5g0004911 RchiOBHm_Chr5g0010461 RchiOBHm_Chr5g0027941 RchiOBHm_Chr5g0028311 RchiOBHm_Chr5g0030141 RchiOBHm_Chr5g0035621 RchiOBHm_Chr5g0050871 RchiOBHm_Chr5g0053321 RchiOBHm_Chr5g0060091 RchiOBHm_Chr5g0063301 RchiOBHm_Chr5g0066571 RchiOBHm_Chr5g0067561 RchiOBHm_Chr6g0262741 RchiOBHm_Chr7g0184001 RchiOBHm_Chr7g0206181 RchiOBHm_Chr7g0212031 RchiOBHm_Chr7g0214521 RchiOBHm_Chr7g0230521 RchiOBHm_Chr7g0230621
rosa_laevigata RLG00000014424 RLG00000022069 RLG00000036206
rosa_multiflora Rmu_sc0000121.1_g000006 Rmu_sc0000271.1_g000001 Rmu_sc0000293.1_g000010 Rmu_sc0000309.1_g000052 Rmu_sc0000556.1_g000045 Rmu_sc0000837.1_g000079 Rmu_sc0001069.1_g000026 Rmu_sc0001198.1_g000001 Rmu_sc0001353.1_g000031 Rmu_sc0001461.1_g000107 Rmu_sc0002011.1_g000038 Rmu_sc0003270.1_g000034 Rmu_sc0003874.1_g000017 Rmu_sc0004729.1_g000006 Rmu_sc0007116.1_g000001 Rmu_sc0009087.1_g000019 Rmu_sc0009877.1_g000004 Rmu_sc0015060.1_g000008 Rmu_sc0016097.1_g000001
rosa_roxburghii Rroxscaffold_1G00024140 Rroxscaffold_1G00027240 Rroxscaffold_1G00030710 Rroxscaffold_1G00035010 Rroxscaffold_1G00050490 Rroxscaffold_1G00069340 Rroxscaffold_1G00072870 Rroxscaffold_2G00078360 Rroxscaffold_2G00098490 Rroxscaffold_2G00106110 Rroxscaffold_2G00109450 Rroxscaffold_2G00125260 Rroxscaffold_2G00154260 Rroxscaffold_3G00221290 Rroxscaffold_3G00221300 Rroxscaffold_3G00232770 Rroxscaffold_3G00249670 Rroxscaffold_3G00255640 Rroxscaffold_3G00255820 Rroxscaffold_3G00255870 Rroxscaffold_3G00258160 Rroxscaffold_3G00258170 Rroxscaffold_3G00265290 Rroxscaffold_4G00320550 Rroxscaffold_4G00322930 Rroxscaffold_4G00331930 Rroxscaffold_4G00332460 Rroxscaffold_5G00337730 Rroxscaffold_5G00364590 Rroxscaffold_5G00365660 Rroxscaffold_5G00373900 Rroxscaffold_6G00395750 Rroxscaffold_6G00397090 Rroxscaffold_6G00407660 Rroxscaffold_6G00421590 Rroxscaffold_7G00156820 Rroxscaffold_7G00174040 Rroxscaffold_7G00175610 Rroxscaffold_7G00182780 Rroxscaffold_7G00210390 Rroxscaffold_7G00210490 Rroxscaffold_7G00214770 Rroxscaffold_7G00215580 Rroxscaffold_7G00215690
rosa_rugosa Rorug01G0099600 Rorug01G0127300 Rorug02G0145300 Rorug02G0145400 Rorug02G0145500.1 Rorug02G0145600 Rorug02G0145700 Rorug02G0145700 Rorug02G0278400 Rorug02G0444700 Rorug02G0542800 Rorug02G0547200 Rorug04G0015900 Rorug04G0082400 Rorug04G0297900 Rorug05G0078200 Rorug05G0207900 Rorug05G0277000 Rorug05G0528600 Rorug05G0528700 Rorug05G0528800 Rorug06G0001000 Rorug06G0246500 Rorug06G0246600 Rorug06G0246700 Rorug07G0189200 Rorug07G0189300 Rorug07G0189400 Rorug07G0189500 Rorug07G0212200 Rorug07G0212200 Rorug07G0221500 Rorug07G0248800
rosa_samantha Rh1AG011600 Rh1AG052100 Rh1AG163900 Rh1BG006600 Rh1BG025100 Rh1BG025200 Rh1BG032500 Rh1BG374400 Rh1BG374500 Rh1CG153000 Rh1DG148800 Rh1DG160400 Rh1DG181900 Rh1DG405100 Rh1DG445600 Rh2AG005600 Rh2AG137100 Rh2AG150500 Rh2AG150600 Rh2AG243200 Rh2AG264300 Rh2AG349900 Rh2AG387700 Rh2AG485100 Rh2CG115600 Rh2CG269600 Rh2CG294000 Rh2CG294100 Rh2CG317700 Rh2CG375000 Rh2CG471200 Rh2CG611400 Rh2DG070000 Rh2DG073900 Rh2DG234600 Rh3AG258200 Rh3CG251500 Rh3CG283900 Rh3CG331200 Rh3CG371500 Rh3DG077300 Rh3DG185900 Rh3DG332700 Rh3DG360400 Rh4AG105100 Rh4BG191100 Rh4DG139800 Rh4DG186000 Rh4DG187900 Rh5AG302000 Rh5AG431600 Rh5CG090000 Rh5CG214700 Rh5CG299100 Rh5CG561200 Rh5DG205600 Rh5DG244500 Rh5DG257300 Rh5DG257400 Rh5DG325900 Rh5DG335500 Rh5DG359300 Rh5DG364600 Rh5DG388600 Rh6AG013900 Rh6BG045400 Rh6CG031300 Rh6CG069100 Rh6CG157500 Rh6DG029800 Rh6DG066100 Rh6DG260800 Rh6DG320100 Rh7AG007600 Rh7BG046100 Rh7BG053900 Rh7BG204900 Rh7BG322600 Rh7BG421200 Rh7DG063200 Rh7DG233200 Rh7DG287000 Rh7DG289600 Rh7DG323500 Rh7DG323800 Rh7DG323900
rosa_wichuraiana Rw0G001160 Rw0G003580 Rw0G003590 Rw0G005910 Rw0G006230 Rw0G010240 Rw0G011660 Rw0G015630 Rw0G021440 Rw0G023690 Rw1G000060 Rw1G006170 Rw1G007940 Rw1G008630 Rw1G009460 Rw1G013800 Rw1G015100 Rw1G015710 Rw1G016040 Rw1G024780 Rw2G004590 Rw2G026770 Rw2G030550 Rw2G036430 Rw3G011440 Rw3G020600 Rw3G020710 Rw3G025390 Rw3G026320 Rw4G003380 Rw4G016140 Rw4G018350 Rw4G027460 Rw5G004690 Rw5G011140 Rw5G011820 Rw5G016560 Rw5G023230 Rw5G027290 Rw5G028520 Rw5G040540 Rw5G046050 Rw6G013650 Rw6G018020 Rw6G019800 Rw6G023450 Rw7G027610

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 396
Acc36I ACCTGC 1 cut(s) 396
AciI CCGC 2 cut(s) 124, 397
AdeI CACNNNGTG 1 cut(s) 332
AfaI GTAC 2 cut(s) 165, 320
AflII CTTAAG 1 cut(s) 412
AgsI TTSAA 3 cut(s) 101, 288, 451
AluBI AGCT 2 cut(s) 138, 153
AluI AGCT 2 cut(s) 138, 153
Alw26I GTCTC 1 cut(s) 332
AoxI GGCC 1 cut(s) 17
ApeKI GCWGC 1 cut(s) 23
AseI ATTAAT 1 cut(s) 36
BbsI GAAGAC 1 cut(s) 263
BbvI GCAGC 1 cut(s) 10
BccI CCATC 2 cut(s) 20, 358
BceAI ACGGC 1 cut(s) 267
BciVI GTATCC 1 cut(s) 437
BcoDI GTCTC 1 cut(s) 332
BfmI CTRYAG 2 cut(s) 139, 265
BfrI CTTAAG 1 cut(s) 412
BfuAI ACCTGC 1 cut(s) 396
BfuI GTATCC 1 cut(s) 437
BisI GCNGC 2 cut(s) 24, 124
BlsI GCNGC 2 cut(s) 25, 125
BmsI GCATC 2 cut(s) 31, 95
BoxI GACNNNNGTC 1 cut(s) 267
BpiI GAAGAC 1 cut(s) 263
BsaJI CCNNGG 1 cut(s) 49
BsaXI ACNNNNNCTCC 2 cut(s) 366, 396
Bse1I ACTGG 1 cut(s) 196
BseDI CCNNGG 1 cut(s) 49
BseGI GGATG 1 cut(s) 86
BseMII CTCAG 1 cut(s) 318
BseNI ACTGG 1 cut(s) 196
BseXI GCAGC 1 cut(s) 10
BsgI GTGCAG 2 cut(s) 159, 374
BshFI GGCC 1 cut(s) 19
BsmAI GTCTC 1 cut(s) 332
BsmBI CGTCTC 1 cut(s) 332
BsnI GGCC 1 cut(s) 19
Bsp1407I TGTACA 1 cut(s) 318
Bsp143I GATC 1 cut(s) 258
BspACI CCGC 2 cut(s) 124, 397
BspANI GGCC 1 cut(s) 19
BspCNI CTCAG 1 cut(s) 317
BspMI ACCTGC 1 cut(s) 396
BspTI CTTAAG 1 cut(s) 412
BsrGI TGTACA 1 cut(s) 318
BsrI ACTGG 1 cut(s) 196
BssECI CCNNGG 1 cut(s) 49
BssMI GATC 1 cut(s) 258
Bst4CI ACNGT 2 cut(s) 269, 354
BstAFI CTTAAG 1 cut(s) 412
BstAUI TGTACA 1 cut(s) 318
BstC8I GCNNGC 4 cut(s) 21, 146, 280, 348
BstDEI CTNAG 1 cut(s) 304
BstDSI CCRYGG 1 cut(s) 49
BstEII GGTNACC 1 cut(s) 417
BstF5I GGATG 1 cut(s) 86
BstKTI GATC 1 cut(s) 261
BstMAI GTCTC 1 cut(s) 332
BstMBI GATC 1 cut(s) 258
BstMWI GCNNNNNNNGC 1 cut(s) 150
BstNSI RCATGY 2 cut(s) 30, 458
BstPAI GACNNNNGTC 1 cut(s) 267
BstPI GGTNACC 1 cut(s) 417
BstSFI CTRYAG 2 cut(s) 139, 265
BstV1I GCAGC 1 cut(s) 10
BstV2I GAAGAC 1 cut(s) 263
BstXI CCANNNNNNTGG 1 cut(s) 191
BsuI GTATCC 1 cut(s) 437
BsuRI GGCC 1 cut(s) 19
BtgI CCRYGG 1 cut(s) 49
BtsCI GGATG 1 cut(s) 86
BtsIMutI CAGTG 1 cut(s) 189
BveI ACCTGC 1 cut(s) 396
Cac8I GCNNGC 4 cut(s) 21, 146, 280, 348
Csp6I GTAC 2 cut(s) 164, 319
CviAII CATG 2 cut(s) 27, 455
CviQI GTAC 2 cut(s) 164, 319
DdeI CTNAG 1 cut(s) 304
DpnI GATC 1 cut(s) 260
DpnII GATC 1 cut(s) 258
DraIII CACNNNGTG 1 cut(s) 332
Eco91I GGTNACC 1 cut(s) 417
EcoO65I GGTNACC 1 cut(s) 417
EcoT22I ATGCAT 1 cut(s) 6
Esp3I CGTCTC 1 cut(s) 332
FaeI CATG 2 cut(s) 30, 458
FaiI YATR 9 cut(s) 6, 28, 59, 110, 112, 114, 436, 456, 469
FatI CATG 2 cut(s) 26, 454
Fnu4HI GCNGC 2 cut(s) 24, 124
FokI GGATG 1 cut(s) 73
Fsp4HI GCNGC 2 cut(s) 24, 124
GluI GCNGC 2 cut(s) 24, 124
HaeIII GGCC 1 cut(s) 19
Hin1II CATG 2 cut(s) 30, 458
HinfI GANTC 1 cut(s) 54
Hpy188I TCNGA 1 cut(s) 307
Hpy188III TCNNGA 1 cut(s) 218
HpyCH4III ACNGT 2 cut(s) 269, 354
HpyCH4IV ACGT 1 cut(s) 341
HpyCH4V TGCA 7 cut(s) 4, 26, 44, 176, 346, 391, 458
HpyF10VI GCNNNNNNNGC 1 cut(s) 150
HpyF3I CTNAG 1 cut(s) 304
HpySE526I ACGT 1 cut(s) 341
Hsp92II CATG 2 cut(s) 30, 458
Kzo9I GATC 1 cut(s) 258
LpnPI CCDG 8 cut(s) 33, 158, 177, 186, 231, 240, 292, 401
Lsp1109I GCAGC 1 cut(s) 10
LweI GCATC 2 cut(s) 31, 95
MaeII ACGT 1 cut(s) 341
MaeIII GTNAC 2 cut(s) 324, 417
MalI GATC 1 cut(s) 260
MboI GATC 1 cut(s) 258
MboII GAAGA 2 cut(s) 263, 325
MluCI AATT 1 cut(s) 221
MmeI TCCRAC 1 cut(s) 114
MnlI CCTC 3 cut(s) 241, 311, 392
Mph1103I ATGCAT 1 cut(s) 6
MseI TTAA 4 cut(s) 36, 207, 356, 413
MspCI CTTAAG 1 cut(s) 412
MwoI GCNNNNNNNGC 1 cut(s) 150
NdeII GATC 1 cut(s) 258
NlaIII CATG 2 cut(s) 30, 458
NmuCI GTSAC 1 cut(s) 324
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 2 cut(s) 30, 458
PaqCI CACCTGC 1 cut(s) 396
PfeI GAWTC 1 cut(s) 54
PkrI GCNGC 2 cut(s) 25, 125
PshAI GACNNNNGTC 1 cut(s) 267
PshBI ATTAAT 1 cut(s) 36
PspEI GGTNACC 1 cut(s) 417
RsaI GTAC 2 cut(s) 165, 320
RsaNI GTAC 2 cut(s) 164, 319
SaqAI TTAA 4 cut(s) 36, 207, 356, 413
SatI GCNGC 2 cut(s) 24, 124
Sau3AI GATC 1 cut(s) 258
SetI ASST 5 cut(s) 140, 155, 344, 390, 419
SfaNI GCATC 2 cut(s) 31, 95
SfcI CTRYAG 2 cut(s) 139, 265
SmlI CTYRAG 1 cut(s) 412
SmoI CTYRAG 1 cut(s) 412
Sse9I AATT 1 cut(s) 221
SsiI CCGC 2 cut(s) 124, 397
TaaI ACNGT 2 cut(s) 269, 354
TaiI ACGT 1 cut(s) 344
TaqI TCGA 1 cut(s) 261
TasI AATT 1 cut(s) 221
TatI WGTACW 1 cut(s) 318
TauI GCSGC 1 cut(s) 126
TfiI GAWTC 1 cut(s) 54
Tru1I TTAA 4 cut(s) 36, 207, 356, 413
Tru9I TTAA 4 cut(s) 36, 207, 356, 413
TscAI CASTG 1 cut(s) 196
TseFI GTSAC 1 cut(s) 324
TseI GCWGC 1 cut(s) 23
Tsp45I GTSAC 1 cut(s) 324
TspDTI ATGAA 2 cut(s) 46, 129
TspGWI ACGGA 1 cut(s) 66
TspRI CASTG 1 cut(s) 196
Vha464I CTTAAG 1 cut(s) 412
VspI ATTAAT 1 cut(s) 36
XceI RCATGY 2 cut(s) 30, 458
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.