Rh5BG032200

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000154
Physical Location & Seq
Forward (+)
2251316 .. 2252173
858 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG032200.1

Sequence Viewer

Length: 858 bp
ATGCATTATTTTCTTGGAGTTGAAGTAATTCAGAGTGTTGAAGGGATTTATATTTGTCAGAGGAAATATGCAAGGGAATTGTTGGAAAGGTTTGGTATGAGGGAGATTAATTCTTCAAAGAATCCTATTGTTCCTGGGTGTAAGCTGATGAAAGACGAAGATGGTGAGAAGGTGGATGCTACACTGTATAAACAGATTGTTGGCTGTTTGATGTACTTGGCAGCAACTCGACCTGATCTAATGTATGTGTTAAGCTTAGTTAGCAGATTCATGAGTCGTCCAACTAAGCTGCATATGCAGGCGGTCAAACGGGTGCTTAGGTATCTCAATGGTACAATTGATTTTGGGATTCTGTATAAAAGGAATGGAGGTGAGAAGCTCGAGGCATACACGGACAGCGATTATGCAGGTGACTTGGATGGCCTGAGAAGTACTTTCGGTTATGTTTTTATGTTGAGCTCAGGTGCAGTCTCATGGTCCTCTAAAAAGCAACCAGTGGTTACTTTGTCCACAACAGAAGCCGAATTTATTGCAGCTGCTTTCTGTGCATGTCAAGTGGTTTGGATGCGAAGGGTTCTTGAGAAACTGAATCATGCTCAACATGGTAGTACCACTGTGTACTGTGATAATTGTTCAACCATAAAGCTTTCGAAGAACCCTGTGTTTCATGGAAGAAGCAAACTTATTGATGTTCGCTTCCACTTTATTCGTGATCTAACTAAAGATGGGACTTTGAAGCTAGCTCACTGCAGTTCTCAGAATCAAATAGCAGATATTATGACGAAGCCATTAAAGCTTGAGGTGTTTGAGAAGCTGCGAGGGATGATGGGTATGTGTCCTATGCCAGACGTAAACTGA
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
DUF4219 RVT_2 Retrotran_gag_2 Retrotran_gag_3 gag_pre-integrs rve zf-CCHC

Protein Analysis

285

Amino Acids

32.3

Weight (kDa)

9.04

Isoelectric Point (pI)

34.84

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: OG0000154)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g02351 FvH4_1g18383 FvH4_1g18442 FvH4_1g19622 FvH4_2g08148 FvH4_2g16312 FvH4_3g06912 FvH4_3g10761 FvH4_3g12332 FvH4_3g12332 FvH4_3g14182 FvH4_3g21021 FvH4_3g35231 FvH4_3g45132 FvH4_4g08663 FvH4_4g30271 FvH4_4g30272 FvH4_4g30901 FvH4_4g30902 FvH4_5g12471 FvH4_5g22951 FvH4_6g07331 FvH4_6g07332 FvH4_6g41872 FvH4_6g43841 FvH4_6g43842 FvH4_6g48811 FvH4_7g03911 FvH4_7g13272 FvH4_7g21181 FvH4_7g29024 FvH4_7g33702
malus_domestica MD00G1037700.v1.1 MD01G1037300.v1.1 MD01G1096700.v1.1 MD01G1101100.v1.1 MD01G1129400.v1.1 MD02G1295200.v1.1 MD03G1131300.v1.1 MD04G1072100.v1.1 MD05G1104800.v1.1 MD07G1028600.v1.1 MD07G1274600.v1.1 MD08G1027200.v1.1 MD09G1044400.v1.1 MD09G1044700.v1.1 MD09G1129500.v1.1 MD09G1238700.v1.1 MD10G1011700.v1.1 MD10G1071400.v1.1 MD10G1108600.v1.1 MD10G1162100.v1.1 MD10G1162300.v1.1 MD11G1016700.v1.1 MD11G1074500.v1.1 MD15G1058600.v1.1 MD15G1383000.v1.1 MD16G1192200.v1.1 MD17G1077400.v1.1 MD17G1077500.v1.1
pyrus_communis pycom01g03520 pycom02g00350 pycom03g09910 pycom03g13960 pycom03g13970 pycom03g19180 pycom04g08410 pycom04g10140 pycom06g03750 pycom07g09240 pycom07g09260 pycom08g20130 pycom09g11020 pycom10g12690 pycom14g04140 pycom14g05710 pycom16g06380 pycom17g05500 pycom808g00140
rosa_chinensis RchiOBHm_Chr1g0316211 RchiOBHm_Chr1g0319901 RchiOBHm_Chr1g0321811 RchiOBHm_Chr1g0329831 RchiOBHm_Chr1g0330721 RchiOBHm_Chr1g0330731 RchiOBHm_Chr1g0368461 RchiOBHm_Chr1g0381111 RchiOBHm_Chr2g0154461 RchiOBHm_Chr2g0164521 RchiOBHm_Chr2g0175301 RchiOBHm_Chr3g0451301 RchiOBHm_Chr3g0453691 RchiOBHm_Chr3g0470191 RchiOBHm_Chr3g0486561 RchiOBHm_Chr4g0409141 RchiOBHm_Chr4g0409151 RchiOBHm_Chr4g0421231 RchiOBHm_Chr4g0440701 RchiOBHm_Chr5g0018211 RchiOBHm_Chr5g0023611 RchiOBHm_Chr5g0045971 RchiOBHm_Chr5g0056061 RchiOBHm_Chr5g0063381 RchiOBHm_Chr5g0064011 RchiOBHm_Chr5g0064021 RchiOBHm_Chr5g0064041 RchiOBHm_Chr6g0259681 RchiOBHm_Chr6g0259691 RchiOBHm_Chr6g0296531 RchiOBHm_Chr7g0186421 RchiOBHm_Chr7g0192321 RchiOBHm_Chr7g0198271 RchiOBHm_Chr7g0198951 RchiOBHm_Chr7g0237911
rosa_laevigata RLG00000026946
rosa_roxburghii Rroxscaffold_1G00014460 Rroxscaffold_1G00014610 Rroxscaffold_1G00028950 Rroxscaffold_1G00052630 Rroxscaffold_2G00104760 Rroxscaffold_2G00138900 Rroxscaffold_2G00145210 Rroxscaffold_3G00220110 Rroxscaffold_4G00297860 Rroxscaffold_4G00321570 Rroxscaffold_5G00332990 Rroxscaffold_5G00360870
rosa_samantha Rh1AG319600 Rh1CG299100 Rh4DG385900 Rh5BG032200
rosa_wichuraiana Rw0G002380 Rw0G003050 Rw0G003940 Rw1G002730 Rw1G003260 Rw1G005490 Rw1G016140 Rw1G016150 Rw1G017930 Rw1G017940 Rw1G022540 Rw1G022630 Rw1G031080 Rw1G039680 Rw2G003340 Rw2G003720 Rw2G006640 Rw2G020790 Rw2G025650 Rw2G028430 Rw2G029550 Rw2G034920 Rw2G040820 Rw2G048420 Rw2G048570 Rw3G010040 Rw3G022790 Rw3G023350 Rw3G025140 Rw3G028810 Rw4G000680 Rw4G003350 Rw4G004640 Rw4G026650 Rw4G034500 Rw5G008490 Rw5G020650 Rw5G023000 Rw5G033610 Rw5G037280 Rw5G046620 Rw5G050250 Rw6G001410 Rw6G005690 Rw6G005820 Rw6G010920 Rw6G022790 Rw6G023940 Rw6G026290 Rw6G028610 Rw6G031260 Rw6G036550 Rw6G036560 Rw7G015300 Rw7G017250 Rw7G018150 Rw7G031960 Rw7G036490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 398
Acc36I ACCTGC 1 cut(s) 398
AciI CCGC 1 cut(s) 302
AcsI RAATTY 1 cut(s) 524
AfaI GTAC 5 cut(s) 215, 334, 433, 610, 620
AgsI TTSAA 5 cut(s) 23, 41, 117, 636, 736
AjnI CCWGG 1 cut(s) 133
Alw21I GWGCWC 1 cut(s) 461
Alw26I GTCTC 1 cut(s) 475
Ama87I CYCGRG 1 cut(s) 380
AoxI GGCC 1 cut(s) 421
ApeKI GCWGC 5 cut(s) 221, 289, 533, 536, 814
ApoI RAATTY 1 cut(s) 524
AseI ATTAAT 1 cut(s) 108
Asp700I GAANNNNTTC 1 cut(s) 27
AspS9I GGNCC 1 cut(s) 477
AsuHPI GGTGA 3 cut(s) 176, 383, 422
AsuII TTCGAA 1 cut(s) 650
AsuNHI GCTAGC 1 cut(s) 739
AvaI CYCGRG 1 cut(s) 380
AvaII GGWCC 1 cut(s) 477
BanII GRGCYC 1 cut(s) 461
Bbv12I GWGCWC 1 cut(s) 461
BbvI GCAGC 5 cut(s) 233, 276, 523, 545, 801
BccI CCATC 4 cut(s) 155, 413, 719, 820
BcgI CGANNNNNNTGC 2 cut(s) 512, 546
BciT130I CCWGG 1 cut(s) 135
BcoDI GTCTC 1 cut(s) 475
BfaI CTAG 1 cut(s) 740
BfmI CTRYAG 1 cut(s) 748
BfuAI ACCTGC 1 cut(s) 398
BisI GCNGC 5 cut(s) 222, 290, 534, 537, 815
BlsI GCNGC 5 cut(s) 223, 291, 535, 538, 816
BmcAI AGTACT 1 cut(s) 433
Bme1390I CCNGG 1 cut(s) 135
Bme18I GGWCC 1 cut(s) 477
BmeT110I CYCGRG 1 cut(s) 380
BmgT120I GGNCC 1 cut(s) 477
BmrFI CCNGG 1 cut(s) 135
BmsI GCATC 2 cut(s) 166, 555
BmtI GCTAGC 1 cut(s) 743
Bpu10I CCTNAGC 2 cut(s) 317, 460
Bpu14I TTCGAA 1 cut(s) 650
BpuEI CTTGAG 2 cut(s) 599, 818
BsaJI CCNNGG 1 cut(s) 134
BsaXI ACNNNNNCTCC 2 cut(s) 9, 39
Bse1I ACTGG 1 cut(s) 494
BseBI CCWGG 1 cut(s) 135
BseDI CCNNGG 1 cut(s) 134
BseGI GGATG 4 cut(s) 181, 424, 570, 828
BseMII CTCAG 3 cut(s) 416, 474, 770
BseNI ACTGG 1 cut(s) 494
BseXI GCAGC 5 cut(s) 233, 276, 523, 545, 801
BsgI GTGCAG 1 cut(s) 486
BshFI GGCC 1 cut(s) 423
BsiHKAI GWGCWC 1 cut(s) 461
BsiHKCI CYCGRG 1 cut(s) 380
BslFI GGGAC 1 cut(s) 742
BsmAI GTCTC 1 cut(s) 475
BsmFI GGGAC 1 cut(s) 742
BsnI GGCC 1 cut(s) 423
BsoBI CYCGRG 1 cut(s) 380
Bsp119I TTCGAA 1 cut(s) 650
Bsp1286I GDGCHC 1 cut(s) 461
Bsp143I GATC 2 cut(s) 235, 712
BspACI CCGC 1 cut(s) 302
BspANI GGCC 1 cut(s) 423
BspCNI CTCAG 3 cut(s) 417, 473, 769
BspHI TCATGA 1 cut(s) 270
BspMAI CTGCAG 1 cut(s) 752
BspMI ACCTGC 1 cut(s) 398
BspOI GCTAGC 1 cut(s) 743
BspT104I TTCGAA 1 cut(s) 650
BsrI ACTGG 1 cut(s) 494
BssECI CCNNGG 1 cut(s) 134
BssMI GATC 2 cut(s) 235, 712
Bst2UI CCWGG 1 cut(s) 135
Bst4CI ACNGT 3 cut(s) 186, 616, 623
BstBI TTCGAA 1 cut(s) 650
BstC8I GCNNGC 2 cut(s) 300, 741
BstDEI CTNAG 6 cut(s) 256, 285, 317, 425, 460, 756
BstF5I GGATG 4 cut(s) 181, 424, 570, 828
BstKTI GATC 2 cut(s) 238, 715
BstMAI GTCTC 1 cut(s) 475
BstMBI GATC 2 cut(s) 235, 712
BstMWI GCNNNNNNNGC 4 cut(s) 261, 295, 545, 793
BstNI CCWGG 1 cut(s) 135
BstNSI RCATGY 1 cut(s) 552
BstSCI CCNGG 1 cut(s) 133
BstSFI CTRYAG 1 cut(s) 748
BstV1I GCAGC 5 cut(s) 233, 276, 523, 545, 801
BsuRI GGCC 1 cut(s) 423
BtsCI GGATG 4 cut(s) 181, 424, 570, 828
BtsI GCAGTG 1 cut(s) 745
BtsIMutI CAGTG 4 cut(s) 182, 501, 612, 745
BveI ACCTGC 1 cut(s) 398
Cac8I GCNNGC 2 cut(s) 300, 741
CciI TCATGA 1 cut(s) 270
Cfr13I GGNCC 1 cut(s) 477
Csp6I GTAC 5 cut(s) 214, 333, 432, 609, 619
CviAII CATG 6 cut(s) 271, 474, 549, 593, 602, 668
CviQI GTAC 5 cut(s) 214, 333, 432, 609, 619
DdeI CTNAG 6 cut(s) 256, 285, 317, 425, 460, 756
DpnI GATC 2 cut(s) 237, 714
DpnII GATC 2 cut(s) 235, 712
Ecl136II GAGCTC 1 cut(s) 459
Eco24I GRGCYC 1 cut(s) 461
Eco47I GGWCC 1 cut(s) 477
Eco53kI GAGCTC 1 cut(s) 459
Eco88I CYCGRG 1 cut(s) 380
EcoICRI GAGCTC 1 cut(s) 459
EcoRII CCWGG 1 cut(s) 133
EcoT22I ATGCAT 1 cut(s) 6
EcoT38I GRGCYC 1 cut(s) 461
FaeI CATG 6 cut(s) 274, 477, 552, 596, 605, 671
FaqI GGGAC 1 cut(s) 742
FatI CATG 6 cut(s) 270, 473, 548, 592, 601, 667
FauNDI CATATG 1 cut(s) 294
Fnu4HI GCNGC 5 cut(s) 222, 290, 534, 537, 815
FokI GGATG 4 cut(s) 188, 431, 577, 835
FriOI GRGCYC 1 cut(s) 461
Fsp4HI GCNGC 5 cut(s) 222, 290, 534, 537, 815
FspBI CTAG 1 cut(s) 740
GluI GCNGC 5 cut(s) 222, 290, 534, 537, 815
HaeIII GGCC 1 cut(s) 423
Hin1II CATG 6 cut(s) 274, 477, 552, 596, 605, 671
HindIII AAGCTT 3 cut(s) 253, 644, 794
HinfI GANTC 6 cut(s) 121, 267, 274, 349, 589, 760
HphI GGTGA 3 cut(s) 176, 383, 422
Hpy166II GTNNAC 3 cut(s) 510, 619, 853
Hpy188I TCNGA 3 cut(s) 33, 60, 759
Hpy188III TCNNGA 3 cut(s) 271, 578, 710
Hpy8I GTNNAC 3 cut(s) 510, 619, 853
HpyAV CCTTC 3 cut(s) 35, 163, 564
HpyCH4III ACNGT 3 cut(s) 186, 616, 623
HpyCH4IV ACGT 1 cut(s) 849
HpyCH4V TGCA 9 cut(s) 4, 71, 292, 298, 407, 467, 533, 548, 750
HpyF10VI GCNNNNNNNGC 4 cut(s) 261, 295, 545, 793
HpyF3I CTNAG 6 cut(s) 256, 285, 317, 425, 460, 756
HpySE526I ACGT 1 cut(s) 849
Hsp92II CATG 6 cut(s) 274, 477, 552, 596, 605, 671
Kzo9I GATC 2 cut(s) 235, 712
LpnPI CCDG 9 cut(s) 120, 147, 246, 284, 393, 437, 447, 507, 672
Lsp1109I GCAGC 5 cut(s) 233, 276, 523, 545, 801
LweI GCATC 2 cut(s) 166, 555
MaeI CTAG 1 cut(s) 740
MaeII ACGT 1 cut(s) 849
MaeIII GTNAC 2 cut(s) 410, 499
MalI GATC 2 cut(s) 237, 714
MboI GATC 2 cut(s) 235, 712
MboII GAAGA 4 cut(s) 105, 170, 664, 684
MfeI CAATTG 1 cut(s) 336
MhlI GDGCHC 1 cut(s) 461
MluCI AATT 6 cut(s) 27, 77, 109, 336, 524, 628
MlyI GAGTC 1 cut(s) 283
MmeI TCCRAC 2 cut(s) 63, 305
MnlI CCTC 7 cut(s) 54, 93, 362, 376, 490, 793, 812
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 1 cut(s) 27
MseI TTAA 3 cut(s) 108, 251, 791
MspA1I CMGCKG 1 cut(s) 536
MspR9I CCNGG 1 cut(s) 135
MunI CAATTG 1 cut(s) 336
MvaI CCWGG 1 cut(s) 135
MwoI GCNNNNNNNGC 4 cut(s) 261, 295, 545, 793
NdeI CATATG 1 cut(s) 294
NdeII GATC 2 cut(s) 235, 712
NheI GCTAGC 1 cut(s) 739
NlaIII CATG 6 cut(s) 274, 477, 552, 596, 605, 671
NmuCI GTSAC 1 cut(s) 410
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 552
NspV TTCGAA 1 cut(s) 650
PaeR7I CTCGAG 1 cut(s) 380
PagI TCATGA 1 cut(s) 270
PaqCI CACCTGC 1 cut(s) 398
PdmI GAANNNNTTC 1 cut(s) 27
PfeI GAWTC 5 cut(s) 121, 267, 349, 589, 760
PkrI GCNGC 5 cut(s) 223, 291, 535, 538, 816
PleI GAGTC 1 cut(s) 282
PpsI GAGTC 1 cut(s) 282
PshBI ATTAAT 1 cut(s) 108
Psp124BI GAGCTC 1 cut(s) 461
Psp6I CCWGG 1 cut(s) 133
PspGI CCWGG 1 cut(s) 133
PspPI GGNCC 1 cut(s) 477
PspXI VCTCGAGB 1 cut(s) 380
PstI CTGCAG 1 cut(s) 752
PvuII CAGCTG 1 cut(s) 536
RsaI GTAC 5 cut(s) 215, 334, 433, 610, 620
RsaNI GTAC 5 cut(s) 214, 333, 432, 609, 619
SacI GAGCTC 1 cut(s) 461
SaqAI TTAA 3 cut(s) 108, 251, 791
SatI GCNGC 5 cut(s) 222, 290, 534, 537, 815
Sau3AI GATC 2 cut(s) 235, 712
Sau96I GGNCC 1 cut(s) 477
ScaI AGTACT 1 cut(s) 433
SchI GAGTC 1 cut(s) 283
ScrFI CCNGG 1 cut(s) 135
SduI GDGCHC 1 cut(s) 461
SfaNI GCATC 2 cut(s) 166, 555
SfcI CTRYAG 1 cut(s) 748
Sfr274I CTCGAG 1 cut(s) 380
SfuI TTCGAA 1 cut(s) 650
SinI GGWCC 1 cut(s) 477
SlaI CTCGAG 1 cut(s) 380
SmlI CTYRAG 3 cut(s) 380, 578, 797
SmoI CTYRAG 3 cut(s) 380, 578, 797
Sse9I AATT 6 cut(s) 27, 77, 109, 336, 524, 628
SsiI CCGC 1 cut(s) 302
SspMI CTAG 1 cut(s) 740
SstI GAGCTC 1 cut(s) 461
StyD4I CCNGG 1 cut(s) 133
TaaI ACNGT 3 cut(s) 186, 616, 623
TaiI ACGT 1 cut(s) 852
TaqI TCGA 3 cut(s) 229, 381, 650
TasI AATT 6 cut(s) 27, 77, 109, 336, 524, 628
TatI WGTACW 3 cut(s) 213, 431, 618
TfiI GAWTC 5 cut(s) 121, 267, 349, 589, 760
Tru1I TTAA 3 cut(s) 108, 251, 791
Tru9I TTAA 3 cut(s) 108, 251, 791
TscAI CASTG 4 cut(s) 189, 501, 619, 752
TseFI GTSAC 1 cut(s) 410
TseI GCWGC 5 cut(s) 221, 289, 533, 536, 814
Tsp45I GTSAC 1 cut(s) 410
TspDTI ATGAA 3 cut(s) 164, 259, 656
TspGWI ACGGA 1 cut(s) 407
TspRI CASTG 4 cut(s) 189, 501, 619, 752
VpaK11BI GGWCC 1 cut(s) 477
VspI ATTAAT 1 cut(s) 108
XapI RAATTY 1 cut(s) 524
XceI RCATGY 1 cut(s) 552
XhoI CTCGAG 1 cut(s) 380
XmnI GAANNNNTTC 1 cut(s) 27
XspI CTAG 1 cut(s) 740
ZrmI AGTACT 1 cut(s) 433
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.