Rh6AG252800

Transposase family tnp2

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0000136
Physical Location & Seq
Reverse (-)
44196246 .. 44199847
3602 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG252800.1

Sequence Viewer

Length: 540 bp
ATGGATAAGAGTTGGATTGATATACGAGAAACGGACTGGCATAAATATGAAGATGGAGTTGATAGTTTTTTGGAGTTTGCATTCACCAACAGCGTTGATCCAACAAGGATAAAGTGTCCTTGTAAGCTATGTCGCAATCGCTATTTTAAGTCTAGGGAGGAAGCAAGAGAGGATATACTGGTAGACGGATTTTGGGAAACATATAGAATATGGGATAAACATGGTGAACCTTACAGACCTGCGGCCGCATACCAAGGTAGTGGGGTTAACTCTGATTCGGTCCTCATTGATGATATGTTTGGCATGATTAATGAGGCAATTGGGATTCCCACTGCAAATCCTGGTCTAGGTGATGATTTTCCGGATTCTTCCCGCCGCCCAACAGTAGTTCCTCAAGTTGAATTATATGCTCGTCAACAATTGGATGAAACTATATATCAGAATGATGCGGAAGTTAATTGGGTGAGGGAAGGAGTGGATGGAACAGAGGTGGATACAAATGAGAAAGACCCTGATGCTGAAATGGAAGAATTTGACTGA
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

179

Amino Acids

20.67

Weight (kDa)

4.3

Isoelectric Point (pI)

26.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transpos_assoc PF13963 3 - 76 1.8e-20 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)
Acc36I ACCTGC 1 cut(s) 247
AccI GTMKAC 1 cut(s) 183
AccIII TCCGGA 1 cut(s) 361
AciI CCGC 5 cut(s) 242, 246, 373, 376, 449
AclWI GGATC 1 cut(s) 92
AcoI YGGCCR 1 cut(s) 243
AcsI RAATTY 1 cut(s) 530
AfiI CCNNNNNNNGG 1 cut(s) 347
AgsI TTSAA 1 cut(s) 401
AjnI CCWGG 1 cut(s) 340
AluBI AGCT 1 cut(s) 127
AluI AGCT 1 cut(s) 127
AlwI GGATC 1 cut(s) 92
Aor13HI TCCGGA 1 cut(s) 361
AoxI GGCC 1 cut(s) 243
ApoI RAATTY 1 cut(s) 530
AseI ATTAAT 1 cut(s) 309
AspS9I GGNCC 1 cut(s) 280
AsuHPI GGTGA 4 cut(s) 76, 236, 362, 475
AvaII GGWCC 1 cut(s) 280
BccI CCATC 2 cut(s) 47, 473
BciT130I CCWGG 1 cut(s) 342
BciVI GTATCC 1 cut(s) 487
BfaI CTAG 2 cut(s) 153, 347
BfuAI ACCTGC 1 cut(s) 247
BfuI GTATCC 1 cut(s) 487
BisI GCNGC 3 cut(s) 243, 246, 376
BlsI GCNGC 3 cut(s) 244, 247, 377
Bme1390I CCNGG 1 cut(s) 342
Bme18I GGWCC 1 cut(s) 280
BmgT120I GGNCC 1 cut(s) 280
BmrFI CCNGG 1 cut(s) 342
BmsI GCATC 2 cut(s) 436, 505
BpuEI CTTGAG 1 cut(s) 378
BsaJI CCNNGG 1 cut(s) 253
BsaWI WCCGGW 1 cut(s) 361
Bsc4I CCNNNNNNNGG 1 cut(s) 347
Bse1I ACTGG 2 cut(s) 41, 183
BseAI TCCGGA 1 cut(s) 361
BseBI CCWGG 1 cut(s) 342
BseDI CCNNGG 1 cut(s) 253
BseGI GGATG 2 cut(s) 430, 484
BseLI CCNNNNNNNGG 1 cut(s) 347
BseNI ACTGG 2 cut(s) 41, 183
BseX3I CGGCCG 1 cut(s) 243
Bsh1285I CGRYCG 1 cut(s) 246
BshFI GGCC 1 cut(s) 245
BsiEI CGRYCG 1 cut(s) 246
BsiSI CCGG 1 cut(s) 362
BslI CCNNNNNNNGG 1 cut(s) 347
BsmI GAATGC 1 cut(s) 80
BsnI GGCC 1 cut(s) 245
Bsp13I TCCGGA 1 cut(s) 361
Bsp143I GATC 1 cut(s) 97
BspACI CCGC 5 cut(s) 242, 246, 373, 376, 449
BspANI GGCC 1 cut(s) 245
BspEI TCCGGA 1 cut(s) 361
BspMI ACCTGC 1 cut(s) 247
BspPI GGATC 1 cut(s) 92
BsrI ACTGG 2 cut(s) 41, 183
BssECI CCNNGG 1 cut(s) 253
BssMI GATC 1 cut(s) 97
BssT1I CCWWGG 1 cut(s) 253
Bst2UI CCWGG 1 cut(s) 342
Bst4CI ACNGT 1 cut(s) 385
BstENI CCTNNNNNAGG 1 cut(s) 345
BstF5I GGATG 2 cut(s) 430, 484
BstKTI GATC 1 cut(s) 100
BstMBI GATC 1 cut(s) 97
BstMCI CGRYCG 1 cut(s) 246
BstNI CCWGG 1 cut(s) 342
BstSCI CCNGG 1 cut(s) 340
BstXI CCANNNNNNTGG 1 cut(s) 260
BstZI CGGCCG 1 cut(s) 243
BsuI GTATCC 1 cut(s) 487
BsuRI GGCC 1 cut(s) 245
BtsCI GGATG 2 cut(s) 430, 484
BtsI GCAGTG 1 cut(s) 330
BtsIMutI CAGTG 1 cut(s) 330
BveI ACCTGC 1 cut(s) 247
CciNI GCGGCCGC 1 cut(s) 243
Cfr13I GGNCC 1 cut(s) 280
CviAII CATG 2 cut(s) 221, 304
CviJI RGCY 2 cut(s) 127, 245
CviKI_1 RGCY 2 cut(s) 127, 245
DpnI GATC 1 cut(s) 99
DpnII GATC 1 cut(s) 97
EaeI YGGCCR 1 cut(s) 243
EagI CGGCCG 1 cut(s) 243
EclXI CGGCCG 1 cut(s) 243
Eco130I CCWWGG 1 cut(s) 253
Eco47I GGWCC 1 cut(s) 280
Eco52I CGGCCG 1 cut(s) 243
EcoNI CCTNNNNNAGG 1 cut(s) 345
EcoRII CCWGG 1 cut(s) 340
EcoT14I CCWWGG 1 cut(s) 253
ErhI CCWWGG 1 cut(s) 253
FaeI CATG 2 cut(s) 224, 307
FatI CATG 2 cut(s) 220, 303
FauI CCCGC 1 cut(s) 380
FblI GTMKAC 1 cut(s) 183
Fnu4HI GCNGC 3 cut(s) 243, 246, 376
FokI GGATG 2 cut(s) 437, 491
Fsp4HI GCNGC 3 cut(s) 243, 246, 376
FspBI CTAG 2 cut(s) 153, 347
GluI GCNGC 3 cut(s) 243, 246, 376
HaeIII GGCC 1 cut(s) 245
HapII CCGG 1 cut(s) 362
Hin1II CATG 2 cut(s) 224, 307
HincII GTYRAC 2 cut(s) 268, 416
HindII GTYRAC 2 cut(s) 268, 416
HinfI GANTC 3 cut(s) 275, 325, 365
HpaI GTTAAC 1 cut(s) 268
HpaII CCGG 1 cut(s) 362
HphI GGTGA 4 cut(s) 76, 236, 362, 475
Hpy166II GTNNAC 4 cut(s) 184, 227, 268, 416
Hpy188I TCNGA 2 cut(s) 274, 441
Hpy188III TCNNGA 1 cut(s) 362
Hpy8I GTNNAC 4 cut(s) 184, 227, 268, 416
HpyAV CCTTC 1 cut(s) 464
HpyCH4III ACNGT 1 cut(s) 385
HpyCH4V TGCA 2 cut(s) 80, 335
Hsp92II CATG 2 cut(s) 224, 307
Kpn2I TCCGGA 1 cut(s) 361
KspAI GTTAAC 1 cut(s) 268
Kzo9I GATC 1 cut(s) 97
LpnPI CCDG 7 cut(s) 22, 164, 252, 327, 354, 375, 525
LweI GCATC 2 cut(s) 436, 505
MaeI CTAG 2 cut(s) 153, 347
MalI GATC 1 cut(s) 99
MboI GATC 1 cut(s) 97
MboII GAAGA 3 cut(s) 62, 360, 539
MfeI CAATTG 2 cut(s) 318, 419
MluCI AATT 5 cut(s) 318, 401, 419, 457, 530
MmeI TCCRAC 1 cut(s) 125
MnlI CCTC 7 cut(s) 151, 163, 293, 307, 402, 459, 481
MroI TCCGGA 1 cut(s) 361
MseI TTAA 4 cut(s) 147, 267, 309, 456
MslI CAYNNNNRTG 1 cut(s) 45
MspI CCGG 1 cut(s) 362
MspR9I CCNGG 1 cut(s) 342
MunI CAATTG 2 cut(s) 318, 419
Mva1269I GAATGC 1 cut(s) 80
MvaI CCWGG 1 cut(s) 342
NdeII GATC 1 cut(s) 97
NlaIII CATG 2 cut(s) 224, 307
NotI GCGGCCGC 1 cut(s) 243
PctI GAATGC 1 cut(s) 80
PfeI GAWTC 3 cut(s) 275, 325, 365
PkrI GCNGC 3 cut(s) 244, 247, 377
PshBI ATTAAT 1 cut(s) 309
Psp6I CCWGG 1 cut(s) 340
PspGI CCWGG 1 cut(s) 340
PspPI GGNCC 1 cut(s) 280
RseI CAYNNNNRTG 1 cut(s) 45
SaqAI TTAA 4 cut(s) 147, 267, 309, 456
SatI GCNGC 3 cut(s) 243, 246, 376
Sau3AI GATC 1 cut(s) 97
Sau96I GGNCC 1 cut(s) 280
ScrFI CCNGG 1 cut(s) 342
SetI ASST 6 cut(s) 129, 232, 241, 259, 352, 492
SfaNI GCATC 2 cut(s) 436, 505
SinI GGWCC 1 cut(s) 280
SmiMI CAYNNNNRTG 1 cut(s) 45
SmlI CTYRAG 1 cut(s) 393
SmoI CTYRAG 1 cut(s) 393
Sse9I AATT 5 cut(s) 318, 401, 419, 457, 530
SsiI CCGC 5 cut(s) 242, 246, 373, 376, 449
SspMI CTAG 2 cut(s) 153, 347
StyD4I CCNGG 1 cut(s) 340
StyI CCWWGG 1 cut(s) 253
TaaI ACNGT 1 cut(s) 385
TaqII GACCGA 1 cut(s) 268
TasI AATT 5 cut(s) 318, 401, 419, 457, 530
TauI GCSGC 3 cut(s) 245, 248, 378
TfiI GAWTC 3 cut(s) 275, 325, 365
Tru1I TTAA 4 cut(s) 147, 267, 309, 456
Tru9I TTAA 4 cut(s) 147, 267, 309, 456
TscAI CASTG 1 cut(s) 337
TspDTI ATGAA 2 cut(s) 63, 441
TspGWI ACGGA 2 cut(s) 47, 201
TspRI CASTG 1 cut(s) 337
VpaK11BI GGWCC 1 cut(s) 280
VspI ATTAAT 1 cut(s) 309
XagI CCTNNNNNAGG 1 cut(s) 345
XapI RAATTY 1 cut(s) 530
XmiI GTMKAC 1 cut(s) 183
XspI CTAG 2 cut(s) 153, 347
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.