Rorug03G0210600

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0000276
Physical Location & Seq
Forward (+)
18811226 .. 18814439
3214 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0210600.1

Sequence Viewer

Length: 543 bp
ATGTTGGGGAGCTTGCTTACCAGATGTCTCATAATGTCTTTTGGGTATGCATACCCTGCATTTGAGTGTTACAAAATCGTGGAGAAGAACAGAGTTGAGATTGAAGAACTTCGGTTTTGGTGTCAATACTGGATTATTGTGGCTGCGCTAACAGTTCTTGAAAGGCTTGGAGATGTATTCGTTGCATGGTTGCCCATGTATGGTGAGGCAAAGGTTGCCATTTTCATCTATCTTTGGTATCCAAAAACCAGGGGAACTGGGTACATATACAAGACCCTGTTGAGGCCTTATGTATCAAAGCATGAAACAGACATTGACCGGAAAATACTGGAGATGAGAGCAAGGGCATGGGATCTGACCGCTTTCTACTGGCAAAACTTCGCCCAATATGGGCAGACAGCTTTCTTCCAATTCCTAAATTACATGGCTGCTCAATCATCGAAAATGACCAAAGCCACAGCTGAGCCGGTGAATGGTCAGTCGAATGGCTCCGCTGCAAGCACAAAGCCGAATGGTGCTTCAGGCGCTTCAAAAGATGATTGA
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
HMA

Protein Analysis

180

Amino Acids

20.68

Weight (kDa)

8.88

Isoelectric Point (pI)

33.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TB2_DP1_HVA22 PF03134 19 - 97 4.1e-24 TB2/DP1, HVA22 family
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: OG0000276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05030 AT4G05030
fragaria_vesca FvH4_3g24080 FvH4_3g24080 FvH4_3g24100 FvH4_3g24100 FvH4_3g42050 FvH4_3g42060 FvH4_3g42070 FvH4_3g42071 FvH4_3g42080 FvH4_3g42090 FvH4_3g42100 FvH4_3g42110
malus_domestica MD03G1038100.v1.1 MD03G1038400.v1.1 MD03G1038600.v1.1 MD03G1038900.v1.1 MD03G1039000.v1.1 MD03G1039100.v1.1 MD03G1188500.v1.1 MD10G1233100.v1.1 MD10G1233300.v1.1 MD10G1341200.v1.1 MD11G1039200.v1.1 MD11G1039300.v1.1 MD11G1204400.v1.1 MD11G1204600.v1.1
prunus_persica Prupe.2G123900_v2.0.a1 Prupe.4G001900_v2.0.a1 Prupe.4G234700_v2.0.a1 Prupe.4G234800_v2.0.a1 Prupe.6G025900_v2.0.a1 Prupe.6G030200_v2.0.a1 Prupe.6G030300_v2.0.a1 Prupe.6G030400_v2.0.a1 Prupe.6G030600_v2.0.a1 Prupe.6G030900_v2.0.a1 Prupe.6G031000_v2.0.a1 Prupe.6G031100_v2.0.a1 Prupe.6G031100_v2.0.a1
pyrus_communis pycom03g02940 pycom03g02950 pycom03g02980 pycom03g02990 pycom03g03010 pycom11g03310 pycom11g03320
rosa_chinensis RchiOBHm_Chr3g0484311 RchiOBHm_Chr5g0000231 RchiOBHm_Chr5g0042661 RchiOBHm_Chr5g0042671 RchiOBHm_Chr5g0075281 RchiOBHm_Chr5g0075291 RchiOBHm_Chr5g0075321 RchiOBHm_Chr5g0075331
rosa_laevigata RLG00000034149 RLG00000036545 RLG00000036546 RLG00000036547 RLG00000036548 RLG00000036549 RLG00000036550
rosa_multiflora Rmu_sc0000295.1_g000011 Rmu_sc0000770.1_g000041 Rmu_sc0000770.1_g000049 Rmu_sc0002564.1_g000002 Rmu_sc0002564.1_g000003 Rmu_sc0002564.1_g000016
rosa_roxburghii Rroxscaffold_1G00006200 Rroxscaffold_1G00006210 Rroxscaffold_1G00006220 Rroxscaffold_1G00006250 Rroxscaffold_1G00006270 Rroxscaffold_1G00037900 Rroxscaffold_1G00037980 Rroxscaffold_6G00397790
rosa_rugosa Rorug03G0210600 Rorug05G0203800 Rorug05G0203900 Rorug05G0438100 Rorug05G0438200 Rorug05G0438700 Rorug05G0438900 Rorug05G0438900
rosa_samantha Rh3AG259700 Rh3AG259800 Rh3BG296300 Rh3DG289900 Rh5AG001600 Rh5AG288900 Rh5AG289000 Rh5AG289200 Rh5AG494800 Rh5AG495000 Rh5AG495200 Rh5AG495300 Rh5BG293000 Rh5BG293100 Rh5BG293300 Rh5BG516400 Rh5BG516500 Rh5BG516900 Rh5BG517000 Rh5CG001900 Rh5CG325700 Rh5CG325900 Rh5CG326000 Rh5CG540200 Rh5CG540300 Rh5CG540500 Rh5CG540600 Rh5DG001900 Rh5DG302900 Rh5DG303000 Rh5DG303200 Rh5DG529100 Rh5DG529300 Rh5DG529400 Rh5DG532500
rosa_wichuraiana Rw3G023420 Rw3G023430 Rw5G000210 Rw5G026800 Rw5G045910 Rw5G045920 Rw5G045930 Rw5G045940 Rw5G045950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 360, 492
AclWI GGATC 1 cut(s) 360
AcuI CTGAAG 1 cut(s) 504
AfaI GTAC 1 cut(s) 263
AfiI CCNNNNNNNGG 4 cut(s) 200, 282, 390, 473
AgsI TTSAA 3 cut(s) 104, 161, 531
AjnI CCWGG 1 cut(s) 248
AluBI AGCT 3 cut(s) 12, 401, 461
AluI AGCT 3 cut(s) 12, 401, 461
Alw26I GTCTC 1 cut(s) 32
AlwI GGATC 1 cut(s) 360
AoxI GGCC 1 cut(s) 284
ApeKI GCWGC 3 cut(s) 143, 428, 494
Asp700I GAANNNNTTC 1 cut(s) 108
AspLEI GCGC 2 cut(s) 148, 527
AsuHPI GGTGA 2 cut(s) 215, 481
BbvI GCAGC 3 cut(s) 130, 415, 481
BciT130I CCWGG 1 cut(s) 250
BciVI GTATCC 1 cut(s) 249
BcoDI GTCTC 1 cut(s) 32
BfoI RGCGCY 1 cut(s) 528
BfuI GTATCC 1 cut(s) 249
BisI GCNGC 3 cut(s) 144, 429, 495
BlpI GCTNAGC 1 cut(s) 462
BlsI GCNGC 3 cut(s) 145, 430, 496
Bme1390I CCNGG 1 cut(s) 250
BmiI GGNNCC 1 cut(s) 490
BmrFI CCNGG 1 cut(s) 250
BmrI ACTGGG 1 cut(s) 267
BmuI ACTGGG 1 cut(s) 267
BpmI CTGGAG 1 cut(s) 350
Bpu1102I GCTNAGC 1 cut(s) 462
BsaJI CCNNGG 1 cut(s) 249
BsaWI WCCGGW 1 cut(s) 318
Bsc4I CCNNNNNNNGG 4 cut(s) 200, 282, 390, 473
Bse118I RCCGGY 1 cut(s) 466
Bse1I ACTGG 4 cut(s) 134, 262, 333, 374
BseBI CCWGG 1 cut(s) 250
BseDI CCNNGG 1 cut(s) 249
BseLI CCNNNNNNNGG 4 cut(s) 200, 282, 390, 473
BseMII CTCAG 1 cut(s) 453
BseNI ACTGG 4 cut(s) 134, 262, 333, 374
BseXI GCAGC 3 cut(s) 130, 415, 481
BshFI GGCC 1 cut(s) 286
BsiSI CCGG 2 cut(s) 319, 467
BslI CCNNNNNNNGG 4 cut(s) 200, 282, 390, 473
BsmAI GTCTC 1 cut(s) 32
BsnI GGCC 1 cut(s) 286
Bsp143I GATC 1 cut(s) 352
Bsp1720I GCTNAGC 1 cut(s) 462
BspACI CCGC 2 cut(s) 360, 492
BspANI GGCC 1 cut(s) 286
BspCNI CTCAG 1 cut(s) 454
BspLI GGNNCC 1 cut(s) 490
BspPI GGATC 1 cut(s) 360
BsrFI RCCGGY 1 cut(s) 466
BsrI ACTGG 4 cut(s) 134, 262, 333, 374
BssAI RCCGGY 1 cut(s) 466
BssECI CCNNGG 1 cut(s) 249
BssMI GATC 1 cut(s) 352
Bst2UI CCWGG 1 cut(s) 250
Bst4CI ACNGT 1 cut(s) 154
BstAPI GCANNNNNTGC 2 cut(s) 56, 215
BstC8I GCNNGC 2 cut(s) 14, 499
BstDEI CTNAG 1 cut(s) 462
BstH2I RGCGCY 1 cut(s) 528
BstHHI GCGC 2 cut(s) 148, 527
BstKTI GATC 1 cut(s) 355
BstMAI GTCTC 1 cut(s) 32
BstMBI GATC 1 cut(s) 352
BstMWI GCNNNNNNNGC 3 cut(s) 56, 215, 524
BstNI CCWGG 1 cut(s) 250
BstSCI CCNGG 1 cut(s) 248
BstV1I GCAGC 3 cut(s) 130, 415, 481
BstX2I RGATCY 1 cut(s) 352
BstYI RGATCY 1 cut(s) 352
BsuI GTATCC 1 cut(s) 249
BsuRI GGCC 1 cut(s) 286
Cac8I GCNNGC 2 cut(s) 14, 499
CfoI GCGC 2 cut(s) 148, 527
Cfr10I RCCGGY 1 cut(s) 466
Csp6I GTAC 1 cut(s) 262
CviAII CATG 5 cut(s) 186, 196, 302, 348, 424
CviQI GTAC 1 cut(s) 262
DdeI CTNAG 1 cut(s) 462
DpnI GATC 1 cut(s) 354
DpnII GATC 1 cut(s) 352
Eco147I AGGCCT 1 cut(s) 286
Eco57I CTGAAG 1 cut(s) 504
EcoRII CCWGG 1 cut(s) 248
EcoT22I ATGCAT 1 cut(s) 52
FaeI CATG 5 cut(s) 189, 199, 305, 351, 427
FatI CATG 5 cut(s) 185, 195, 301, 347, 423
Fnu4HI GCNGC 3 cut(s) 144, 429, 495
Fsp4HI GCNGC 3 cut(s) 144, 429, 495
GlaI GCGC 2 cut(s) 147, 526
GluI GCNGC 3 cut(s) 144, 429, 495
GsuI CTGGAG 1 cut(s) 350
HaeII RGCGCY 1 cut(s) 528
HaeIII GGCC 1 cut(s) 286
HapII CCGG 2 cut(s) 319, 467
HhaI GCGC 2 cut(s) 148, 527
Hin1II CATG 5 cut(s) 189, 199, 305, 351, 427
Hin6I GCGC 2 cut(s) 146, 525
HinP1I GCGC 2 cut(s) 146, 525
HpaII CCGG 2 cut(s) 319, 467
HphI GGTGA 2 cut(s) 215, 481
Hpy188I TCNGA 1 cut(s) 357
Hpy188III TCNNGA 1 cut(s) 158
HpyCH4III ACNGT 1 cut(s) 154
HpyCH4V TGCA 4 cut(s) 50, 59, 185, 497
HpyF10VI GCNNNNNNNGC 3 cut(s) 56, 215, 524
HpyF3I CTNAG 1 cut(s) 462
Hsp92II CATG 5 cut(s) 189, 199, 305, 351, 427
HspAI GCGC 2 cut(s) 146, 525
Kzo9I GATC 1 cut(s) 352
LmnI GCTCC 2 cut(s) 9, 494
Lsp1109I GCAGC 3 cut(s) 130, 415, 481
MaeIII GTNAC 1 cut(s) 68
MalI GATC 1 cut(s) 354
MboI GATC 1 cut(s) 352
MboII GAAGA 3 cut(s) 97, 116, 397
MflI RGATCY 1 cut(s) 352
MluCI AATT 2 cut(s) 410, 418
MnlI CCTC 2 cut(s) 199, 276
Mph1103I ATGCAT 1 cut(s) 52
MroXI GAANNNNTTC 1 cut(s) 108
MslI CAYNNNNRTG 1 cut(s) 64
MspA1I CMGCKG 2 cut(s) 461, 494
MspI CCGG 2 cut(s) 319, 467
MspR9I CCNGG 1 cut(s) 250
MvaI CCWGG 1 cut(s) 250
MwoI GCNNNNNNNGC 3 cut(s) 56, 215, 524
NdeII GATC 1 cut(s) 352
NlaIII CATG 5 cut(s) 189, 199, 305, 351, 427
NlaIV GGNNCC 1 cut(s) 490
NsiI ATGCAT 1 cut(s) 52
PceI AGGCCT 1 cut(s) 286
PdmI GAANNNNTTC 1 cut(s) 108
PkrI GCNGC 3 cut(s) 145, 430, 496
Psp6I CCWGG 1 cut(s) 248
PspGI CCWGG 1 cut(s) 248
PspN4I GGNNCC 1 cut(s) 490
PsuI RGATCY 1 cut(s) 352
PvuII CAGCTG 1 cut(s) 461
RsaI GTAC 1 cut(s) 263
RsaNI GTAC 1 cut(s) 262
RseI CAYNNNNRTG 1 cut(s) 64
SatI GCNGC 3 cut(s) 144, 429, 495
Sau3AI GATC 1 cut(s) 352
ScrFI CCNGG 1 cut(s) 250
SetI ASST 4 cut(s) 14, 216, 403, 463
SmiMI CAYNNNNRTG 1 cut(s) 64
Sse9I AATT 2 cut(s) 410, 418
SseBI AGGCCT 1 cut(s) 286
SsiI CCGC 2 cut(s) 360, 492
StuI AGGCCT 1 cut(s) 286
StyD4I CCNGG 1 cut(s) 248
TaaI ACNGT 1 cut(s) 154
TaqI TCGA 2 cut(s) 440, 482
TasI AATT 2 cut(s) 410, 418
TseI GCWGC 3 cut(s) 143, 428, 494
TspDTI ATGAA 2 cut(s) 214, 318
XmnI GAANNNNTTC 1 cut(s) 108
Zsp2I ATGCAT 1 cut(s) 52
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.