RchiOBHm_Chr7g0200201

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
7
OG0000291
Physical Location & Seq
Forward (+)
18055799 .. 18056596
798 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ17917

Sequence Viewer

Length: 795 bp
ATGTTGGAGGAGTACTTGCGCCATTTCGTTCATGCCAACCAACAGAATTGGGCGCAATTGCTCGATGTTGCACAATTTTGTTTCAACTCGAAGAAGAGCTCATCCACCAACAAGAGTGCTTTTGAAATTGTCACTGGCCAACAGCCTCTCTTGCCGCATACGGTGCAAGAAGTCTACAAAGGGGCGAATCCGCGTGCTTTCAACTTCACAAAAGAGTGGAAGACTAATGCCGAGATCGCTCAAGCCTATCTAGAGAAAGCGGCGGGGAGGATGAAGAAGTGGGCAGATCAAGGCCGCAAGCCCAGGGAGTTTCAGGCAGGGGACATGGTCCTTGTCAAGCTGCTTCCGGAACAACTCAGGTTCCTGCGCTCCAGAGACAAACGACTATTCAGGAAGTATGAAGGACCGCTCCCCATCATTGCTAAAGTGGGGAAGTGCTCCTACAAAGTCGATATTCCCGCCTGGATGAGAGTTCACCCCGTCTTCCACGTCAGCAACCTCAAGCCGCACCAGCCAGACTGTGAAGATCAAGCACGCAACCAGCCTGTTCGGGAGCACGTCGACATCAGACCACCAAAGCCGAAAGAAGTGGAGGAGATTCTAGCAGAGAGAGTGATCCGAGTGTCAAGGCGCCCATGCCAGCAGTTCCTGGTCAAGTGGAAGAGTCTGGGAGATGAAGAAACTAGTTGGGAGAATGCTGACGTCCTGAAGAAGAAGTTCCAGCAGAAGATTGAAGACTTCAAGATCAAGGCAGTCGTCGAGAGCGCCGACAGCTTAAGTGGGGGAGGATGTTAG
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
Asp_protease_2 Chromo RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

264

Amino Acids

30.58

Weight (kDa)

9.47

Isoelectric Point (pI)

31.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SH3_Tf2-1 PF24626 107 - 170 1e-15 Tf2-1-like, SH3 domain
Chromo PF00385 196 - 248 1e-11 Chromo (CHRromatin Organisation MOdifier) 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: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 705
AccB1I GGYRCC 1 cut(s) 630
AccBSI CCGCTC 1 cut(s) 409
AccI GTMKAC 2 cut(s) 174, 561
AccII CGCG 1 cut(s) 193
AccIII TCCGGA 1 cut(s) 346
AciI CCGC 8 cut(s) 155, 191, 260, 263, 295, 407, 459, 506
AclWI GGATC 1 cut(s) 610
AcoI YGGCCR 1 cut(s) 136
AcuI CTGAAG 1 cut(s) 728
AcyI GRCGYC 2 cut(s) 631, 702
AfaI GTAC 1 cut(s) 14
AflII CTTAAG 1 cut(s) 775
AgsI TTSAA 5 cut(s) 85, 125, 202, 734, 742
AhlI ACTAGT 1 cut(s) 683
AjiI CACGTC 2 cut(s) 490, 559
AjnI CCWGG 3 cut(s) 302, 461, 648
AluBI AGCT 3 cut(s) 99, 340, 774
AluI AGCT 3 cut(s) 99, 340, 774
Alw21I GWGCWC 3 cut(s) 101, 440, 558
Alw26I GTCTC 1 cut(s) 369
AlwI GGATC 1 cut(s) 610
AlwNI CAGNNNCTG 1 cut(s) 649
Aor13HI TCCGGA 1 cut(s) 346
AoxI GGCC 2 cut(s) 136, 292
ApeKI GCWGC 1 cut(s) 340
Asp700I GAANNNNTTC 1 cut(s) 716
AspLEI GCGC 5 cut(s) 21, 55, 369, 633, 767
AspS9I GGNCC 2 cut(s) 328, 404
AsuHPI GGTGA 1 cut(s) 467
AvaII GGWCC 2 cut(s) 328, 404
BalI TGGCCA 1 cut(s) 138
BanI GGYRCC 1 cut(s) 630
BanII GRGCYC 1 cut(s) 101
BarI GAAGNNNNNNTAC 2 cut(s) 425, 457
BbsI GAAGAC 3 cut(s) 227, 475, 741
Bbv12I GWGCWC 3 cut(s) 101, 440, 558
BbvI GCAGC 1 cut(s) 327
BccI CCATC 1 cut(s) 422
BciT130I CCWGG 3 cut(s) 304, 463, 650
BcoDI GTCTC 1 cut(s) 369
BcuI ACTAGT 1 cut(s) 683
BfaI CTAG 3 cut(s) 251, 602, 684
BfoI RGCGCY 2 cut(s) 634, 768
BfrI CTTAAG 1 cut(s) 775
BisI GCNGC 5 cut(s) 155, 261, 295, 341, 506
BlsI GCNGC 5 cut(s) 156, 262, 296, 342, 507
BmcAI AGTACT 1 cut(s) 14
Bme1390I CCNGG 3 cut(s) 304, 463, 650
Bme18I GGWCC 2 cut(s) 328, 404
BmgBI CACGTC 2 cut(s) 490, 559
BmgT120I GGNCC 2 cut(s) 328, 404
BmiI GGNNCC 2 cut(s) 362, 632
BmrFI CCNGG 3 cut(s) 304, 463, 650
BpiI GAAGAC 3 cut(s) 227, 475, 741
BpmI CTGGAG 1 cut(s) 355
BpuEI CTTGAG 2 cut(s) 225, 485
BsaHI GRCGYC 2 cut(s) 631, 702
BsaJI CCNNGG 2 cut(s) 302, 303
BsaWI WCCGGW 1 cut(s) 346
Bse1I ACTGG 1 cut(s) 139
Bse3DI GCAATG 1 cut(s) 417
BseAI TCCGGA 1 cut(s) 346
BseBI CCWGG 3 cut(s) 304, 463, 650
BseDI CCNNGG 2 cut(s) 302, 303
BseGI GGATG 4 cut(s) 101, 276, 471, 794
BseMI GCAATG 1 cut(s) 417
BseMII CTCAG 1 cut(s) 370
BseNI ACTGG 1 cut(s) 139
BseRI GAGGAG 2 cut(s) 23, 608
BseXI GCAGC 1 cut(s) 327
Bsh1236I CGCG 1 cut(s) 193
BshFI GGCC 2 cut(s) 138, 294
BshNI GGYRCC 1 cut(s) 630
BsiHKAI GWGCWC 3 cut(s) 101, 440, 558
BsiSI CCGG 1 cut(s) 347
BslFI GGGAC 1 cut(s) 335
BsmAI GTCTC 1 cut(s) 369
BsmFI GGGAC 1 cut(s) 335
BsmI GAATGC 1 cut(s) 700
BsnI GGCC 2 cut(s) 138, 294
Bsp1286I GDGCHC 3 cut(s) 101, 440, 558
Bsp13I TCCGGA 1 cut(s) 346
Bsp143I GATC 5 cut(s) 234, 286, 526, 615, 744
BspACI CCGC 8 cut(s) 155, 191, 260, 263, 295, 407, 459, 506
BspANI GGCC 2 cut(s) 138, 294
BspCNI CTCAG 1 cut(s) 369
BspEI TCCGGA 1 cut(s) 346
BspFNI CGCG 1 cut(s) 193
BspLI GGNNCC 2 cut(s) 362, 632
BspPI GGATC 1 cut(s) 610
BspQI GCTCTTC 1 cut(s) 89
BspT107I GGYRCC 1 cut(s) 630
BspTI CTTAAG 1 cut(s) 775
BsrBI CCGCTC 1 cut(s) 409
BsrDI GCAATG 1 cut(s) 417
BsrI ACTGG 1 cut(s) 139
BssECI CCNNGG 2 cut(s) 302, 303
BssMI GATC 5 cut(s) 234, 286, 526, 615, 744
BssNI GRCGYC 2 cut(s) 631, 702
Bst2UI CCWGG 3 cut(s) 304, 463, 650
Bst4CI ACNGT 2 cut(s) 163, 521
Bst6I CTCTTC 2 cut(s) 89, 656
BstACI GRCGYC 2 cut(s) 631, 702
BstAFI CTTAAG 1 cut(s) 775
BstAPI GCANNNNNTGC 1 cut(s) 163
BstC8I GCNNGC 4 cut(s) 195, 299, 535, 641
BstDEI CTNAG 1 cut(s) 356
BstF5I GGATG 4 cut(s) 101, 276, 471, 794
BstFNI CGCG 1 cut(s) 193
BstH2I RGCGCY 2 cut(s) 634, 768
BstHHI GCGC 5 cut(s) 21, 55, 369, 633, 767
BstKTI GATC 5 cut(s) 237, 289, 529, 618, 747
BstMAI GTCTC 1 cut(s) 369
BstMBI GATC 5 cut(s) 234, 286, 526, 615, 744
BstMWI GCNNNNNNNGC 5 cut(s) 151, 163, 236, 511, 771
BstNI CCWGG 3 cut(s) 304, 463, 650
BstSCI CCNGG 3 cut(s) 302, 461, 648
BstUI CGCG 1 cut(s) 193
BstV1I GCAGC 1 cut(s) 327
BstV2I GAAGAC 3 cut(s) 227, 475, 741
BsuRI GGCC 2 cut(s) 138, 294
BtrI CACGTC 2 cut(s) 490, 559
BtsCI GGATG 4 cut(s) 101, 276, 471, 794
BtsIMutI CAGTG 1 cut(s) 132
Cac8I GCNNGC 4 cut(s) 195, 299, 535, 641
CaiI CAGNNNCTG 1 cut(s) 649
CfoI GCGC 5 cut(s) 21, 55, 369, 633, 767
Cfr13I GGNCC 2 cut(s) 328, 404
Csp6I GTAC 1 cut(s) 13
CviAII CATG 3 cut(s) 32, 325, 636
CviQI GTAC 1 cut(s) 13
DdeI CTNAG 1 cut(s) 356
DinI GGCGCC 1 cut(s) 632
DpnI GATC 5 cut(s) 236, 288, 528, 617, 746
DpnII GATC 5 cut(s) 234, 286, 526, 615, 744
EaeI YGGCCR 1 cut(s) 136
Eam1104I CTCTTC 2 cut(s) 89, 656
EarI CTCTTC 2 cut(s) 89, 656
Ecl136II GAGCTC 1 cut(s) 99
Eco24I GRGCYC 1 cut(s) 101
Eco47I GGWCC 2 cut(s) 328, 404
Eco53kI GAGCTC 1 cut(s) 99
Eco57I CTGAAG 1 cut(s) 728
EcoICRI GAGCTC 1 cut(s) 99
EcoRII CCWGG 3 cut(s) 302, 461, 648
EcoT38I GRGCYC 1 cut(s) 101
EgeI GGCGCC 1 cut(s) 632
EheI GGCGCC 1 cut(s) 632
FaeI CATG 3 cut(s) 35, 328, 639
FaiI YATR 5 cut(s) 33, 159, 326, 399, 637
FaqI GGGAC 1 cut(s) 335
FatI CATG 3 cut(s) 31, 324, 635
FauI CCCGC 2 cut(s) 256, 466
FblI GTMKAC 2 cut(s) 174, 561
Fnu4HI GCNGC 5 cut(s) 155, 261, 295, 341, 506
FokI GGATG 3 cut(s) 88, 283, 478
FriOI GRGCYC 1 cut(s) 101
Fsp4HI GCNGC 5 cut(s) 155, 261, 295, 341, 506
FspBI CTAG 3 cut(s) 251, 602, 684
GlaI GCGC 5 cut(s) 20, 54, 368, 632, 766
GluI GCNGC 5 cut(s) 155, 261, 295, 341, 506
GsuI CTGGAG 1 cut(s) 355
HaeII RGCGCY 2 cut(s) 634, 768
HaeIII GGCC 2 cut(s) 138, 294
HapII CCGG 1 cut(s) 347
HhaI GCGC 5 cut(s) 21, 55, 369, 633, 767
Hin1I GRCGYC 2 cut(s) 631, 702
Hin1II CATG 3 cut(s) 35, 328, 639
Hin6I GCGC 5 cut(s) 19, 53, 367, 631, 765
HinP1I GCGC 5 cut(s) 19, 53, 367, 631, 765
HincII GTYRAC 1 cut(s) 562
HindII GTYRAC 1 cut(s) 562
HinfI GANTC 3 cut(s) 187, 598, 664
HpaII CCGG 1 cut(s) 347
HphI GGTGA 1 cut(s) 467
Hpy166II GTNNAC 3 cut(s) 175, 475, 562
Hpy188I TCNGA 2 cut(s) 569, 620
Hpy188III TCNNGA 8 cut(s) 251, 347, 372, 391, 551, 706, 742, 760
Hpy8I GTNNAC 3 cut(s) 175, 475, 562
Hpy99I CGWCG 2 cut(s) 563, 761
HpyAV CCTTC 1 cut(s) 395
HpyCH4III ACNGT 2 cut(s) 163, 521
HpyCH4IV ACGT 3 cut(s) 489, 558, 702
HpyCH4V TGCA 2 cut(s) 71, 166
HpyF10VI GCNNNNNNNGC 5 cut(s) 151, 163, 236, 511, 771
HpyF3I CTNAG 1 cut(s) 356
HpySE526I ACGT 3 cut(s) 489, 558, 702
Hsp92I GRCGYC 2 cut(s) 631, 702
Hsp92II CATG 3 cut(s) 35, 328, 639
HspAI GCGC 5 cut(s) 19, 53, 367, 631, 765
KasI GGCGCC 1 cut(s) 630
Kpn2I TCCGGA 1 cut(s) 346
Kzo9I GATC 5 cut(s) 234, 286, 526, 615, 744
LguI GCTCTTC 1 cut(s) 89
LmnI GCTCC 4 cut(s) 374, 414, 443, 553
Lsp1109I GCAGC 1 cut(s) 327
MaeI CTAG 3 cut(s) 251, 602, 684
MaeII ACGT 3 cut(s) 489, 558, 702
MaeIII GTNAC 1 cut(s) 130
MalI GATC 5 cut(s) 236, 288, 528, 617, 746
MbiI CCGCTC 1 cut(s) 409
MboI GATC 5 cut(s) 234, 286, 526, 615, 744
MfeI CAATTG 1 cut(s) 56
MhlI GDGCHC 3 cut(s) 101, 440, 558
MlsI TGGCCA 1 cut(s) 138
MluCI AATT 4 cut(s) 46, 56, 74, 126
MluNI TGGCCA 1 cut(s) 138
Mly113I GGCGCC 1 cut(s) 631
MlyI GAGTC 1 cut(s) 673
MnlI CCTC 5 cut(s) 156, 261, 509, 586, 779
Mox20I TGGCCA 1 cut(s) 138
MroI TCCGGA 1 cut(s) 346
MroXI GAANNNNTTC 1 cut(s) 716
MscI TGGCCA 1 cut(s) 138
MseI TTAA 1 cut(s) 776
Msp20I TGGCCA 1 cut(s) 138
MspCI CTTAAG 1 cut(s) 775
MspI CCGG 1 cut(s) 347
MspR9I CCNGG 3 cut(s) 304, 463, 650
MunI CAATTG 1 cut(s) 56
Mva1269I GAATGC 1 cut(s) 700
MvaI CCWGG 3 cut(s) 304, 463, 650
MvnI CGCG 1 cut(s) 193
MwoI GCNNNNNNNGC 5 cut(s) 151, 163, 236, 511, 771
NarI GGCGCC 1 cut(s) 631
NdeII GATC 5 cut(s) 234, 286, 526, 615, 744
NlaIII CATG 3 cut(s) 35, 328, 639
NlaIV GGNNCC 2 cut(s) 362, 632
NmeAIII GCCGAG 1 cut(s) 256
NmuCI GTSAC 1 cut(s) 130
PasI CCCWGGG 1 cut(s) 303
PciSI GCTCTTC 1 cut(s) 89
PcsI WCGNNNNNNNCGW 1 cut(s) 765
PctI GAATGC 1 cut(s) 700
PdmI GAANNNNTTC 1 cut(s) 716
PfeI GAWTC 2 cut(s) 187, 598
PflFI GACNNNGTC 1 cut(s) 326
PkrI GCNGC 5 cut(s) 156, 262, 296, 342, 507
PleI GAGTC 1 cut(s) 672
PluTI GGCGCC 1 cut(s) 634
PpsI GAGTC 1 cut(s) 672
Psp124BI GAGCTC 1 cut(s) 101
Psp6I CCWGG 3 cut(s) 302, 461, 648
PspGI CCWGG 3 cut(s) 302, 461, 648
PspN4I GGNNCC 2 cut(s) 362, 632
PspPI GGNCC 2 cut(s) 328, 404
PstNI CAGNNNCTG 1 cut(s) 649
PsyI GACNNNGTC 1 cut(s) 326
RsaI GTAC 1 cut(s) 14
RsaNI GTAC 1 cut(s) 13
SacI GAGCTC 1 cut(s) 101
SalI GTCGAC 1 cut(s) 560
SapI GCTCTTC 1 cut(s) 89
SaqAI TTAA 1 cut(s) 776
SatI GCNGC 5 cut(s) 155, 261, 295, 341, 506
Sau3AI GATC 5 cut(s) 234, 286, 526, 615, 744
Sau96I GGNCC 2 cut(s) 328, 404
ScaI AGTACT 1 cut(s) 14
SchI GAGTC 1 cut(s) 673
ScrFI CCNGG 3 cut(s) 304, 463, 650
SduI GDGCHC 3 cut(s) 101, 440, 558
SetI ASST 8 cut(s) 101, 342, 362, 492, 501, 561, 705, 776
SfoI GGCGCC 1 cut(s) 632
SinI GGWCC 2 cut(s) 328, 404
SmlI CTYRAG 3 cut(s) 240, 500, 775
SmoI CTYRAG 3 cut(s) 240, 500, 775
SpeI ACTAGT 1 cut(s) 683
Sse9I AATT 4 cut(s) 46, 56, 74, 126
SsiI CCGC 8 cut(s) 155, 191, 260, 263, 295, 407, 459, 506
SspDI GGCGCC 1 cut(s) 630
SspMI CTAG 3 cut(s) 251, 602, 684
SstI GAGCTC 1 cut(s) 101
StyD4I CCNGG 3 cut(s) 302, 461, 648
TaaI ACNGT 2 cut(s) 163, 521
TaiI ACGT 3 cut(s) 492, 561, 705
TaqI TCGA 5 cut(s) 63, 89, 450, 561, 759
TasI AATT 4 cut(s) 46, 56, 74, 126
TatI WGTACW 1 cut(s) 12
TauI GCSGC 4 cut(s) 157, 263, 297, 508
TfiI GAWTC 2 cut(s) 187, 598
Tru1I TTAA 1 cut(s) 776
Tru9I TTAA 1 cut(s) 776
TscAI CASTG 1 cut(s) 139
TseFI GTSAC 1 cut(s) 130
TseI GCWGC 1 cut(s) 340
Tsp45I GTSAC 1 cut(s) 130
TspDTI ATGAA 4 cut(s) 20, 287, 414, 690
TspRI CASTG 1 cut(s) 139
Tth111I GACNNNGTC 1 cut(s) 326
Vha464I CTTAAG 1 cut(s) 775
VpaK11BI GGWCC 2 cut(s) 328, 404
XbaI TCTAGA 1 cut(s) 250
XmiI GTMKAC 2 cut(s) 174, 561
XmnI GAANNNNTTC 1 cut(s) 716
XspI CTAG 3 cut(s) 251, 602, 684
ZraI GACGTC 1 cut(s) 703
ZrmI AGTACT 1 cut(s) 14
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.