Rroxscaffold_1G00042240

Plant mobile domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000264
Physical Location & Seq
Forward (+)
60340006 .. 60340619
614 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00042240.1

Sequence Viewer

Length: 549 bp
ATGCTACTGAAAGCTTATGGAAGAAGTTCAGGAAGAGTGGGAGTGAATTGGAGCACCAAGCATTCCTTGCCTTTTGGTTGTTCAGCTAGAGGTACCCGCATTGCGCTTGCACCGGCTGTTCTTGCCTGCATTTATAGAGATTTGAGTGTGCTGAAAAGGACTATTGTAGCTTCAAATGAATTAAAGGGCAGGAATGATGTTTCAAAACTCAAACTCAAGTCACCATTTCATTTAGTACAGGTTTGGGCATGGGAAAGATTTCTGGAATTTAGGCCAGTACCCAATGTTATTAGTTATGCTGAGCCAAGATTGGCCCTATGGACCAGAGTAGATGGTCTAAAAGTTGTAAATGTGAGGACAGTTTTAGAATCAGCTGGAGAAGTTTTTGTTTGGCGCCCTTATGCCATGCCAATTGAGAACTGGAACTTGCCTAAATACTATGACGAGAAGGAAAAGTGGGTTCGCCCGGGTCTGGAGGATAAATTATTGTCATTTGTCATGTGCTTGAGGGAGACTGAATTATCTGGATTAGATACTAGAGAGCAATAA
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
PMD

Protein Analysis

182

Amino Acids

20.91

Weight (kDa)

9.64

Isoelectric Point (pI)

36.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PMD PF10536 29 - 182 5.3e-32 Plant mobile 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: OG0000264)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G48145 AT1G50745
fragaria_vesca FvH4_3g22280 FvH4_3g22281 FvH4_3g22290 FvH4_3g22300 FvH4_3g22321 FvH4_3g22330 FvH4_3g22330 FvH4_3g22331
rosa_chinensis RchiOBHm_Chr5g0038351 RchiOBHm_Chr5g0038361 RchiOBHm_Chr5g0038371 RchiOBHm_Chr5g0038381 RchiOBHm_Chr5g0038421 RchiOBHm_Chr5g0038451 RchiOBHm_Chr5g0038471 RchiOBHm_Chr5g0038491 RchiOBHm_Chr5g0038561 RchiOBHm_Chr5g0038731 RchiOBHm_Chr5g0038741 RchiOBHm_Chr5g0038771 RchiOBHm_Chr5g0038781 RchiOBHm_Chr5g0038791 RchiOBHm_Chr5g0038801 RchiOBHm_Chr5g0038831
rosa_laevigata RLG00000008815 RLG00000020213 RLG00000033850 RLG00000033864 RLG00000033875
rosa_multiflora Rmu_co8006804.1_g000001 Rmu_co8168012.1_g000001 Rmu_co8236409.1_g000001 Rmu_co8247247.1_g000001 Rmu_co8440391.1_g000001 Rmu_sc0000533.1_g000088 Rmu_sc0003198.1_g000005 Rmu_sc0003198.1_g000006 Rmu_sc0003198.1_g000007 Rmu_sc0003198.1_g000008 Rmu_sc0003198.1_g000013 Rmu_sc0005722.1_g000005 Rmu_sc0005722.1_g000007 Rmu_sc0005722.1_g000012 Rmu_sc0005722.1_g000013 Rmu_sc0005836.1_g000001 Rmu_sc0009149.1_g000006 Rmu_sc0009149.1_g000018 Rmu_sc0009149.1_g000020 Rmu_sc0017397.1_g000004 Rmu_sc0025071.1_g000001 Rmu_sc0032545.1_g000001 Rmu_sc0038346.1_g000001
rosa_roxburghii Rroxscaffold_1G00042150 Rroxscaffold_1G00042180 Rroxscaffold_1G00042230 Rroxscaffold_1G00042240 Rroxscaffold_1G00042260 Rroxscaffold_1G00042320 Rroxscaffold_1G00042330 Rroxscaffold_1G00042350 Rroxscaffold_1G00042360 Rroxscaffold_1G00042370 Rroxscaffold_1G00042400 Rroxscaffold_1G00042430 Rroxscaffold_1G00042440 Rroxscaffold_1G00042510 Rroxscaffold_1G00042580 Rroxscaffold_1G00042620
rosa_rugosa Rorug05G0172200 Rorug05G0172300 Rorug05G0172500 Rorug05G0173100 Rorug05G0173200.1 Rorug05G0173600 Rorug05G0173800 Rorug05G0174000 Rorug05G0174100 Rorug05G0174200 Rorug05G0174200 Rorug05G0174400 Rorug05G0174500 Rorug05G0174600 Rorug05G0174700 Rorug05G0174800
rosa_samantha Rh5AG259600 Rh5AG260200 Rh5AG260600 Rh5AG260800 Rh5AG261300 Rh5AG261400 Rh5AG261500 Rh5AG261700 Rh5AG261900 Rh5BG263600 Rh5BG264200 Rh5BG264500 Rh5BG264800 Rh5BG265100 Rh5BG265200 Rh5BG265500 Rh5BG265600 Rh5BG266000 Rh5CG295900 Rh5CG296700 Rh5CG296800 Rh5CG296900 Rh5CG297200 Rh5CG297700 Rh5CG297900 Rh5CG298100 Rh5CG298200 Rh5CG298300 Rh5CG298400 Rh5CG298500 Rh5CG298900 Rh5CG299200 Rh6DG125700
rosa_wichuraiana Rw0G001950 Rw0G001960 Rw0G013290 Rw5G024020 Rw5G024310 Rw5G024340 Rw5G024350 Rw5G024370 Rw5G024380 Rw5G024390 Rw5G024400 Rw5G024420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 92
AccB1I GGYRCC 2 cut(s) 92, 393
AciI CCGC 1 cut(s) 97
AcsI RAATTY 1 cut(s) 266
AcyI GRCGYC 1 cut(s) 394
AfaI GTAC 3 cut(s) 94, 237, 279
AfiI CCNNNNNNNGG 1 cut(s) 472
AgsI TTSAA 2 cut(s) 174, 204
AluBI AGCT 4 cut(s) 14, 86, 170, 374
AluI AGCT 4 cut(s) 14, 86, 170, 374
Alw21I GWGCWC 1 cut(s) 56
Alw26I GTCTC 1 cut(s) 506
Ama87I CYCGRG 1 cut(s) 466
AoxI GGCC 2 cut(s) 272, 312
ApoI RAATTY 1 cut(s) 266
Asp700I GAANNNNTTC 2 cut(s) 25, 258
Asp718I GGTACC 1 cut(s) 92
AspLEI GCGC 2 cut(s) 106, 396
AspS9I GGNCC 2 cut(s) 313, 321
AsuC2I CCSGG 2 cut(s) 467, 468
AsuHPI GGTGA 1 cut(s) 213
AvaI CYCGRG 1 cut(s) 466
AvaII GGWCC 1 cut(s) 321
BanI GGYRCC 2 cut(s) 92, 393
Bbv12I GWGCWC 1 cut(s) 56
BccI CCATC 1 cut(s) 326
BcnI CCSGG 2 cut(s) 467, 468
BcoDI GTCTC 1 cut(s) 506
BfaI CTAG 2 cut(s) 87, 537
BfoI RGCGCY 1 cut(s) 397
BlpI GCTNAGC 1 cut(s) 300
Bme1390I CCNGG 2 cut(s) 467, 468
Bme18I GGWCC 1 cut(s) 321
BmeT110I CYCGRG 1 cut(s) 466
BmgT120I GGNCC 2 cut(s) 313, 321
BmiI GGNNCC 2 cut(s) 94, 395
BmrFI CCNGG 2 cut(s) 467, 468
BpmI CTGGAG 2 cut(s) 396, 494
Bpu1102I GCTNAGC 1 cut(s) 300
BpuEI CTTGAG 2 cut(s) 200, 526
BpuMI CCSGG 2 cut(s) 467, 468
BsaHI GRCGYC 1 cut(s) 394
BsaJI CCNNGG 1 cut(s) 466
Bsc4I CCNNNNNNNGG 1 cut(s) 472
Bse118I RCCGGY 1 cut(s) 112
Bse1I ACTGG 2 cut(s) 275, 425
Bse3DI GCAATG 1 cut(s) 99
BseDI CCNNGG 1 cut(s) 466
BseLI CCNNNNNNNGG 1 cut(s) 472
BseMI GCAATG 1 cut(s) 99
BseMII CTCAG 1 cut(s) 291
BseNI ACTGG 2 cut(s) 275, 425
BshFI GGCC 2 cut(s) 274, 314
BshNI GGYRCC 2 cut(s) 92, 393
BsiHKAI GWGCWC 1 cut(s) 56
BsiHKCI CYCGRG 1 cut(s) 466
BsiSI CCGG 2 cut(s) 113, 467
BslI CCNNNNNNNGG 1 cut(s) 472
BsmAI GTCTC 1 cut(s) 506
BsmI GAATGC 1 cut(s) 61
BsnI GGCC 2 cut(s) 274, 314
BsoBI CYCGRG 1 cut(s) 466
Bsp1286I GDGCHC 1 cut(s) 56
Bsp1720I GCTNAGC 1 cut(s) 300
BspACI CCGC 1 cut(s) 97
BspANI GGCC 2 cut(s) 274, 314
BspCNI CTCAG 1 cut(s) 292
BspLI GGNNCC 2 cut(s) 94, 395
BspT107I GGYRCC 2 cut(s) 92, 393
BsrDI GCAATG 1 cut(s) 99
BsrFI RCCGGY 1 cut(s) 112
BsrI ACTGG 2 cut(s) 275, 425
BssAI RCCGGY 1 cut(s) 112
BssECI CCNNGG 1 cut(s) 466
BssNI GRCGYC 1 cut(s) 394
Bst4CI ACNGT 1 cut(s) 361
Bst6I CTCTTC 1 cut(s) 28
BstACI GRCGYC 1 cut(s) 394
BstAPI GCANNNNNTGC 1 cut(s) 67
BstC8I GCNNGC 2 cut(s) 108, 127
BstDEI CTNAG 1 cut(s) 300
BstH2I RGCGCY 1 cut(s) 397
BstHHI GCGC 2 cut(s) 106, 396
BstMAI GTCTC 1 cut(s) 506
BstMWI GCNNNNNNNGC 2 cut(s) 67, 122
BstSCI CCNGG 2 cut(s) 465, 466
BsuRI GGCC 2 cut(s) 274, 314
Cac8I GCNNGC 2 cut(s) 108, 127
CfoI GCGC 2 cut(s) 106, 396
Cfr10I RCCGGY 1 cut(s) 112
Cfr13I GGNCC 2 cut(s) 313, 321
Cfr9I CCCGGG 1 cut(s) 466
Csp6I GTAC 3 cut(s) 93, 236, 278
CviAII CATG 3 cut(s) 249, 406, 499
CviJI RGCY 8 cut(s) 14, 86, 116, 170, 274, 304, 314, 374
CviKI_1 RGCY 8 cut(s) 14, 86, 116, 170, 274, 304, 314, 374
CviQI GTAC 3 cut(s) 93, 236, 278
DdeI CTNAG 1 cut(s) 300
DinI GGCGCC 1 cut(s) 395
Eam1104I CTCTTC 1 cut(s) 28
EarI CTCTTC 1 cut(s) 28
Eco47I GGWCC 1 cut(s) 321
Eco88I CYCGRG 1 cut(s) 466
EgeI GGCGCC 1 cut(s) 395
EheI GGCGCC 1 cut(s) 395
FaeI CATG 3 cut(s) 252, 409, 502
FaiI YATR 9 cut(s) 18, 135, 250, 297, 319, 402, 407, 441, 500
FalI AAGNNNNNCTT 2 cut(s) 50, 82
FatI CATG 3 cut(s) 248, 405, 498
FauI CCCGC 1 cut(s) 104
FspBI CTAG 2 cut(s) 87, 537
GlaI GCGC 2 cut(s) 105, 395
GsuI CTGGAG 2 cut(s) 396, 494
HaeII RGCGCY 1 cut(s) 397
HaeIII GGCC 2 cut(s) 274, 314
HapII CCGG 2 cut(s) 113, 467
HhaI GCGC 2 cut(s) 106, 396
Hin1I GRCGYC 1 cut(s) 394
Hin1II CATG 3 cut(s) 252, 409, 502
Hin6I GCGC 2 cut(s) 104, 394
HinP1I GCGC 2 cut(s) 104, 394
HindIII AAGCTT 1 cut(s) 12
HinfI GANTC 1 cut(s) 368
HpaII CCGG 2 cut(s) 113, 467
HphI GGTGA 1 cut(s) 213
Hpy188III TCNNGA 4 cut(s) 30, 263, 473, 525
HpyAV CCTTC 1 cut(s) 442
HpyCH4III ACNGT 1 cut(s) 361
HpyCH4V TGCA 2 cut(s) 110, 129
HpyF10VI GCNNNNNNNGC 2 cut(s) 67, 122
HpyF3I CTNAG 1 cut(s) 300
Hsp92I GRCGYC 1 cut(s) 394
Hsp92II CATG 3 cut(s) 252, 409, 502
HspAI GCGC 2 cut(s) 104, 394
KasI GGCGCC 1 cut(s) 393
KpnI GGTACC 1 cut(s) 96
LmnI GCTCC 1 cut(s) 51
MaeI CTAG 2 cut(s) 87, 537
MaeIII GTNAC 1 cut(s) 219
MboII GAAGA 2 cut(s) 33, 45
MfeI CAATTG 1 cut(s) 411
MhlI GDGCHC 1 cut(s) 56
MluCI AATT 6 cut(s) 46, 179, 266, 411, 482, 518
Mly113I GGCGCC 1 cut(s) 394
MnlI CCTC 4 cut(s) 83, 348, 469, 501
MroXI GAANNNNTTC 2 cut(s) 25, 258
MseI TTAA 1 cut(s) 182
MspA1I CMGCKG 1 cut(s) 374
MspI CCGG 2 cut(s) 113, 467
MspR9I CCNGG 2 cut(s) 467, 468
MunI CAATTG 1 cut(s) 411
Mva1269I GAATGC 1 cut(s) 61
MwoI GCNNNNNNNGC 2 cut(s) 67, 122
NarI GGCGCC 1 cut(s) 394
NciI CCSGG 2 cut(s) 467, 468
NlaIII CATG 3 cut(s) 252, 409, 502
NlaIV GGNNCC 2 cut(s) 94, 395
NmuCI GTSAC 1 cut(s) 219
PctI GAATGC 1 cut(s) 61
PdmI GAANNNNTTC 2 cut(s) 25, 258
PfeI GAWTC 1 cut(s) 368
PluTI GGCGCC 1 cut(s) 397
PspN4I GGNNCC 2 cut(s) 94, 395
PspPI GGNCC 2 cut(s) 313, 321
PvuII CAGCTG 1 cut(s) 374
RsaI GTAC 3 cut(s) 94, 237, 279
RsaNI GTAC 3 cut(s) 93, 236, 278
SaqAI TTAA 1 cut(s) 182
Sau96I GGNCC 2 cut(s) 313, 321
ScrFI CCNGG 2 cut(s) 467, 468
SduI GDGCHC 1 cut(s) 56
SetI ASST 6 cut(s) 16, 88, 94, 172, 243, 376
SfoI GGCGCC 1 cut(s) 395
SinI GGWCC 1 cut(s) 321
SmaI CCCGGG 1 cut(s) 468
SmlI CTYRAG 2 cut(s) 215, 505
SmoI CTYRAG 2 cut(s) 215, 505
Sse9I AATT 6 cut(s) 46, 179, 266, 411, 482, 518
SsiI CCGC 1 cut(s) 97
SspDI GGCGCC 1 cut(s) 393
SspMI CTAG 2 cut(s) 87, 537
StyD4I CCNGG 2 cut(s) 465, 466
TaaI ACNGT 1 cut(s) 361
TasI AATT 6 cut(s) 46, 179, 266, 411, 482, 518
TatI WGTACW 1 cut(s) 235
TfiI GAWTC 1 cut(s) 368
Tru1I TTAA 1 cut(s) 182
Tru9I TTAA 1 cut(s) 182
TseFI GTSAC 1 cut(s) 219
Tsp45I GTSAC 1 cut(s) 219
TspDTI ATGAA 2 cut(s) 192, 218
TspMI CCCGGG 1 cut(s) 466
VpaK11BI GGWCC 1 cut(s) 321
XapI RAATTY 1 cut(s) 266
XcmI CCANNNNNNNNNTGG 1 cut(s) 417
XmaI CCCGGG 1 cut(s) 466
XmnI GAANNNNTTC 2 cut(s) 25, 258
XspI CTAG 2 cut(s) 87, 537
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.