Rroxscaffold_2G00085900

Transposase family tnp2

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000136
Physical Location & Seq
Forward (+)
8205487 .. 8206107
621 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00085900.1

Sequence Viewer

Length: 621 bp
ATGGACAAATCGTGGATAGATTTAGCAGATAGGCATTCTCCATCATATTATGATGCAATAGATCAATTTATGACTTTTGCATACATCAATAGGGATCTGGGTTCAAGGATTTATTGTCCTTGTAGAAAGTGCGAAAATCGTTATCTTTATGTAAGATTAGTTGTGCGACAACATCTTCGTGATCATGGTTTCTTTAAGAAGTATAGAAAATGGGATAAGCATGGTGAGCCTAATCATTATGTTGATCCAGTGGATGGAAATCAAGATGGAATTGAGTTAGATTCTTATATGGAGGATGATATGGTCAGACTTGTCCAAGAAGCTTTAGGAGCTCCTAATGTAGGAACACATGATCAGAATAGTGAAGAAAACTTAACTAATCCTCATGTAGGGCCAAACGAACCTACCAAGAAGTTCTTGAAGCTTCTTGAAGATGCAAATCTTCCATTGTATCCGGGTGCTAAGAGACACACAGCTTTGTCATATACAGTTCGACTTTTGCAAGCGAAGGTACTCCATGGATGGACAGATAAATCATTCAAAACTTTACTTGAGATATCAAAAGAATCTATGCCTGAAGGTGTGCAACTTCCCAAGTCATATTACGAAGCTCGAAGTTAA
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
DUF4216 DUF4218 Transpos_assoc Transposase_21

Protein Analysis

206

Amino Acids

24.01

Weight (kDa)

6.5

Isoelectric Point (pI)

36.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transpos_assoc PF13963 3 - 76 5e-19 Transposase-associated 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000136)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g28181 FvH4_1g28182 FvH4_1g28940 FvH4_1g29801 FvH4_1g29802 FvH4_3g03321 FvH4_3g12341 FvH4_3g22002 FvH4_3g22003 FvH4_3g22852 FvH4_3g22860 FvH4_3g32806 FvH4_4g02410 FvH4_4g08110 FvH4_4g09791 FvH4_4g09792 FvH4_4g09830 FvH4_4g09831 FvH4_4g09832 FvH4_4g23330 FvH4_5g25220 FvH4_5g30160 FvH4_5g32340 FvH4_5g37421 FvH4_6g21851 FvH4_6g21852 FvH4_6g22855 FvH4_6g22870 FvH4_6g30440 FvH4_6g30962 FvH4_6g37930
malus_domestica MD16G1158000.v1.1
prunus_persica Prupe.1G266000_v2.0.a1 Prupe.1G266100_v2.0.a1 Prupe.1G266200_v2.0.a1 Prupe.2G006600_v2.0.a1 Prupe.2G110300_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0322121 RchiOBHm_Chr1g0322131 RchiOBHm_Chr1g0341871 RchiOBHm_Chr1g0346721 RchiOBHm_Chr2g0118081 RchiOBHm_Chr2g0138651 RchiOBHm_Chr3g0468651 RchiOBHm_Chr3g0475981 RchiOBHm_Chr4g0416921 RchiOBHm_Chr5g0068021 RchiOBHm_Chr6g0273901 RchiOBHm_Chr6g0278661 RchiOBHm_Chr6g0281481 RchiOBHm_Chr6g0306081 RchiOBHm_Chr6g0306091 RchiOBHm_Chr7g0220731 RchiOBHm_Chr7g0220741 RchiOBHm_Chr7g0222641 RchiOBHm_Chr7g0225401 RchiOBHm_Chr7g0230481
rosa_laevigata RLG00000001569 RLG00000006184 RLG00000007906 RLG00000009863 RLG00000011359 RLG00000016125 RLG00000018543 RLG00000020693 RLG00000029658 RLG00000029716
rosa_multiflora Rmu_co8244591.1_g000001 Rmu_co8396391.1_g000001 Rmu_sc0000120.1_g000013 Rmu_sc0000239.1_g000047 Rmu_sc0000252.1_g000019 Rmu_sc0000322.1_g000037 Rmu_sc0000376.1_g000010 Rmu_sc0000435.1_g000033 Rmu_sc0001872.1_g000001 Rmu_sc0001992.1_g000011 Rmu_sc0001992.1_g000012 Rmu_sc0002231.1_g000010 Rmu_sc0002372.1_g000033 Rmu_sc0002705.1_g000012 Rmu_sc0003435.1_g000015 Rmu_sc0004084.1_g000042 Rmu_sc0004084.1_g000043 Rmu_sc0004755.1_g000011 Rmu_sc0005391.1_g000010 Rmu_sc0005970.1_g000001 Rmu_sc0006163.1_g000003 Rmu_sc0006422.1_g000004 Rmu_sc0006422.1_g000005 Rmu_sc0006952.1_g000002 Rmu_sc0010937.1_g000007 Rmu_sc0012130.1_g000008 Rmu_sc0024120.1_g000001 Rmu_sc0035618.1_g000001
rosa_roxburghii Rroxscaffold_1G00039230 Rroxscaffold_2G00085900 Rroxscaffold_2G00085910 Rroxscaffold_2G00125240 Rroxscaffold_2G00126850 Rroxscaffold_2G00150980 Rroxscaffold_3G00230580 Rroxscaffold_3G00245050 Rroxscaffold_4G00320680 Rroxscaffold_4G00328800 Rroxscaffold_5G00349640 Rroxscaffold_6G00406600 Rroxscaffold_7G00165570 Rroxscaffold_7G00191490 Rroxscaffold_7G00192700 Rroxscaffold_7G00192710 Rroxscaffold_7G00201190 Rroxscaffold_7G00201620
rosa_rugosa Rorug01G0033100 Rorug01G0089100 Rorug01G0102000 Rorug01G0353100 Rorug01G0353200 Rorug01G0353300 Rorug02G0276900 Rorug02G0362200 Rorug02G0445100 Rorug02G0627600 Rorug02G0627600 Rorug02G0627600 Rorug03G0267700 Rorug03G0267800 Rorug03G0327400 Rorug04G0004500 Rorug04G0006700 Rorug04G0061500 Rorug04G0064700 Rorug04G0073300 Rorug04G0094300 Rorug04G0181200 Rorug04G0181200 Rorug04G0330100 Rorug05G0035600 Rorug05G0038600 Rorug05G0201600 Rorug05G0367700 Rorug05G0407600 Rorug05G0407700 Rorug05G0543400 Rorug06G0012200 Rorug06G0363700.1 Rorug07G0085100
rosa_samantha Rh1AG049700 Rh1AG182700 Rh1AG182800 Rh1BG015500 Rh1BG398700 Rh1BG409100 Rh1CG074100 Rh1CG169200 Rh1CG169300 Rh1CG169400 Rh1DG130800 Rh1DG130900 Rh1DG440400 Rh2DG440900 Rh3AG144700 Rh3BG167100 Rh3DG366800 Rh4AG214400 Rh4BG189700 Rh4BG189800 Rh4CG268600 Rh4DG004400 Rh4DG147900 Rh4DG248300 Rh5AG053900 Rh5AG054000 Rh5AG317200 Rh5AG326400 Rh5AG332600 Rh5AG419700 Rh5CG284900 Rh5CG288600 Rh6AG252700 Rh6AG252800 Rh6AG256900 Rh6AG257000 Rh6AG257500 Rh6BG175300 Rh6DG226200 Rh6DG264500 Rh7AG374000 Rh7AG398100 Rh7BG274900 Rh7BG300500 Rh7BG308200 Rh7BG451200
rosa_wichuraiana Rw1G015860 Rw1G022160 Rw3G016160 Rw3G021170 Rw4G006020 Rw4G008740 Rw5G027400 Rw5G031840 Rw5G036940 Rw6G008320 Rw6G030330 Rw7G033450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 254
AclWI GGATC 2 cut(s) 102, 239
AcuI CTGAAG 1 cut(s) 597
AfaI GTAC 1 cut(s) 513
AfiI CCNNNNNNNGG 3 cut(s) 254, 341, 389
AgsI TTSAA 4 cut(s) 105, 421, 431, 541
AluBI AGCT 5 cut(s) 323, 332, 424, 476, 611
AluI AGCT 5 cut(s) 323, 332, 424, 476, 611
Alw21I GWGCWC 1 cut(s) 334
Alw26I GTCTC 1 cut(s) 460
AlwI GGATC 2 cut(s) 102, 239
AoxI GGCC 1 cut(s) 392
ArsI GACNNNNNNTTYG 2 cut(s) 159, 191
AspS9I GGNCC 1 cut(s) 392
AsuC2I CCSGG 1 cut(s) 456
AsuHPI GGTGA 1 cut(s) 236
BanII GRGCYC 1 cut(s) 334
Bbv12I GWGCWC 1 cut(s) 334
BccI CCATC 4 cut(s) 49, 248, 260, 516
BciVI GTATCC 1 cut(s) 462
BclI TGATCA 2 cut(s) 181, 352
BcnI CCSGG 1 cut(s) 456
BcoDI GTCTC 1 cut(s) 460
BfuI GTATCC 1 cut(s) 462
Bme1390I CCNGG 1 cut(s) 456
BmgT120I GGNCC 1 cut(s) 392
BmrFI CCNGG 1 cut(s) 456
BmsI GCATC 2 cut(s) 43, 424
BpuEI CTTGAG 1 cut(s) 572
BpuMI CCSGG 1 cut(s) 456
BsaBI GATNNNNATC 2 cut(s) 258, 438
BsaJI CCNNGG 1 cut(s) 517
Bsc4I CCNNNNNNNGG 3 cut(s) 254, 341, 389
Bse1I ACTGG 1 cut(s) 248
Bse8I GATNNNNATC 2 cut(s) 258, 438
BseDI CCNNGG 1 cut(s) 517
BseGI GGATG 3 cut(s) 259, 301, 527
BseJI GATNNNNATC 2 cut(s) 258, 438
BseLI CCNNNNNNNGG 3 cut(s) 254, 341, 389
BseNI ACTGG 1 cut(s) 248
BshFI GGCC 1 cut(s) 394
BsiHKAI GWGCWC 1 cut(s) 334
BsiSI CCGG 1 cut(s) 455
BslI CCNNNNNNNGG 3 cut(s) 254, 341, 389
BsmAI GTCTC 1 cut(s) 460
BsmI GAATGC 1 cut(s) 34
BsnI GGCC 1 cut(s) 394
Bsp1286I GDGCHC 1 cut(s) 334
Bsp143I GATC 5 cut(s) 61, 94, 181, 244, 352
Bsp19I CCATGG 1 cut(s) 517
BspANI GGCC 1 cut(s) 394
BspPI GGATC 2 cut(s) 102, 239
BsrI ACTGG 1 cut(s) 248
BssECI CCNNGG 1 cut(s) 517
BssMI GATC 5 cut(s) 61, 94, 181, 244, 352
BssT1I CCWWGG 1 cut(s) 517
Bst4CI ACNGT 1 cut(s) 490
BstC8I GCNNGC 1 cut(s) 504
BstDEI CTNAG 1 cut(s) 462
BstDSI CCRYGG 1 cut(s) 517
BstENI CCTNNNNNAGG 2 cut(s) 339, 387
BstF5I GGATG 3 cut(s) 259, 301, 527
BstKTI GATC 5 cut(s) 64, 97, 184, 247, 355
BstMAI GTCTC 1 cut(s) 460
BstMBI GATC 5 cut(s) 61, 94, 181, 244, 352
BstMWI GCNNNNNNNGC 2 cut(s) 226, 329
BstSCI CCNGG 1 cut(s) 454
BstX2I RGATCY 1 cut(s) 94
BstYI RGATCY 1 cut(s) 94
BsuI GTATCC 1 cut(s) 462
BsuRI GGCC 1 cut(s) 394
BtgI CCRYGG 1 cut(s) 517
BtsCI GGATG 3 cut(s) 259, 301, 527
BtsIMutI CAGTG 1 cut(s) 255
Cac8I GCNNGC 1 cut(s) 504
Cfr13I GGNCC 1 cut(s) 392
Csp6I GTAC 1 cut(s) 512
CviAII CATG 5 cut(s) 185, 221, 350, 386, 518
CviJI RGCY 7 cut(s) 229, 323, 332, 394, 424, 476, 611
CviKI_1 RGCY 7 cut(s) 229, 323, 332, 394, 424, 476, 611
CviQI GTAC 1 cut(s) 512
DdeI CTNAG 1 cut(s) 462
DpnI GATC 5 cut(s) 63, 96, 183, 246, 354
DpnII GATC 5 cut(s) 61, 94, 181, 244, 352
Ecl136II GAGCTC 1 cut(s) 332
Eco130I CCWWGG 1 cut(s) 517
Eco24I GRGCYC 1 cut(s) 334
Eco32I GATATC 1 cut(s) 558
Eco53kI GAGCTC 1 cut(s) 332
Eco57I CTGAAG 1 cut(s) 597
EcoICRI GAGCTC 1 cut(s) 332
EcoNI CCTNNNNNAGG 2 cut(s) 339, 387
EcoRV GATATC 1 cut(s) 558
EcoT14I CCWWGG 1 cut(s) 517
EcoT38I GRGCYC 1 cut(s) 334
ErhI CCWWGG 1 cut(s) 517
FaeI CATG 5 cut(s) 188, 224, 353, 389, 521
FalI AAGNNNNNCTT 2 cut(s) 401, 433
FatI CATG 5 cut(s) 184, 220, 349, 385, 517
FbaI TGATCA 2 cut(s) 181, 352
FokI GGATG 3 cut(s) 266, 308, 534
FriOI GRGCYC 1 cut(s) 334
HaeIII GGCC 1 cut(s) 394
HapII CCGG 1 cut(s) 455
Hin1II CATG 5 cut(s) 188, 224, 353, 389, 521
HindIII AAGCTT 2 cut(s) 321, 422
HinfI GANTC 2 cut(s) 281, 566
HpaII CCGG 1 cut(s) 455
HphI GGTGA 1 cut(s) 236
Hpy188I TCNGA 2 cut(s) 308, 357
Hpy188III TCNNGA 4 cut(s) 179, 263, 418, 428
HpyAV CCTTC 2 cut(s) 502, 572
HpyCH4III ACNGT 1 cut(s) 490
HpyCH4V TGCA 5 cut(s) 56, 80, 437, 502, 586
HpyF10VI GCNNNNNNNGC 2 cut(s) 226, 329
HpyF3I CTNAG 1 cut(s) 462
Hsp92II CATG 5 cut(s) 188, 224, 353, 389, 521
Ksp22I TGATCA 2 cut(s) 181, 352
Kzo9I GATC 5 cut(s) 61, 94, 181, 244, 352
LmnI GCTCC 2 cut(s) 329, 337
LpnPI CCDG 4 cut(s) 83, 261, 468, 588
LweI GCATC 2 cut(s) 43, 424
MalI GATC 5 cut(s) 63, 96, 183, 246, 354
MboI GATC 5 cut(s) 61, 94, 181, 244, 352
MboII GAAGA 4 cut(s) 167, 377, 434, 443
MflI RGATCY 1 cut(s) 94
MhlI GDGCHC 1 cut(s) 334
MluCI AATT 2 cut(s) 65, 270
MnlI CCTC 2 cut(s) 286, 393
MseI TTAA 3 cut(s) 195, 374, 619
MslI CAYNNNNRTG 1 cut(s) 177
MspI CCGG 1 cut(s) 455
MspR9I CCNGG 1 cut(s) 456
Mva1269I GAATGC 1 cut(s) 34
MwoI GCNNNNNNNGC 2 cut(s) 226, 329
NciI CCSGG 1 cut(s) 456
NcoI CCATGG 1 cut(s) 517
NdeII GATC 5 cut(s) 61, 94, 181, 244, 352
NlaIII CATG 5 cut(s) 188, 224, 353, 389, 521
PctI GAATGC 1 cut(s) 34
PfeI GAWTC 2 cut(s) 281, 566
PflMI CCANNNNNTGG 1 cut(s) 254
Psp124BI GAGCTC 1 cut(s) 334
PspPI GGNCC 1 cut(s) 392
PsuI RGATCY 1 cut(s) 94
RsaI GTAC 1 cut(s) 513
RsaNI GTAC 1 cut(s) 512
RseI CAYNNNNRTG 1 cut(s) 177
SacI GAGCTC 1 cut(s) 334
SaqAI TTAA 3 cut(s) 195, 374, 619
Sau3AI GATC 5 cut(s) 61, 94, 181, 244, 352
Sau96I GGNCC 1 cut(s) 392
ScrFI CCNGG 1 cut(s) 456
SduI GDGCHC 1 cut(s) 334
SetI ASST 8 cut(s) 325, 334, 406, 426, 478, 513, 583, 613
SfaNI GCATC 2 cut(s) 43, 424
SmiMI CAYNNNNRTG 1 cut(s) 177
SmlI CTYRAG 1 cut(s) 551
SmoI CTYRAG 1 cut(s) 551
Sse9I AATT 2 cut(s) 65, 270
SstI GAGCTC 1 cut(s) 334
StyD4I CCNGG 1 cut(s) 454
StyI CCWWGG 1 cut(s) 517
TaaI ACNGT 1 cut(s) 490
TaqI TCGA 2 cut(s) 493, 613
TasI AATT 2 cut(s) 65, 270
TfiI GAWTC 2 cut(s) 281, 566
Tru1I TTAA 3 cut(s) 195, 374, 619
Tru9I TTAA 3 cut(s) 195, 374, 619
TscAI CASTG 1 cut(s) 255
TspRI CASTG 1 cut(s) 255
Van91I CCANNNNNTGG 1 cut(s) 254
XagI CCTNNNNNAGG 2 cut(s) 339, 387
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.