Rw1G019750

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0020124
Physical Location & Seq
Forward (+)
43006025 .. 43008027
2003 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G019750.1

Sequence Viewer

Length: 564 bp
ATGTTTAAGAAGGAGGGATTTCGTTGGACTACAGAAGCCTTGAAAGCATTTAAGACTTTGAAGGAAGCTCTAATATCCACACCAGTTTTGGCCATTCCAGACTTCTCCAAGGAGTTTGTAATCGAGTGTGATGCTTCTGATTTAGGTTTAGGTGCAGGAGATAGGCCTCACACTTGGGTGCAAGCCTTACCGTGGCCTGAATGGTGGTATAACACTGCGTACCACTCGGCCTTGAGGATGACTCCATTCCAGGCATTATATGGCTATGCACTACCTTCCATAATTCCCTACCTACCAGGCTCCACAACATTGGCTTCAGTGGATGAACAATTGAGGAACAGGGATGAACTACTAGCAGTGATCAAAAGAAACTTGCAGAGGGCACAGTCTAGAATGAAAGGGTTGTATGATAAGAAACACACTGAACGAGTGTTTCAAGTTGGAGATTGGGTCGTTTGGCTCCAAAACCAGTATGGGTGCAAACTATCTCTTTTGAGCGTGTGCGCAGGCGTGCCACCACCATGGGGTGCAGTCATCGGAGAATCCCTTGACCTGACTTCTTGA
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
RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

187

Amino Acids

21.15

Weight (kDa)

7.7

Isoelectric Point (pI)

33.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RT_RNaseH_2 PF17919 9 - 52 4.7e-13 RNase H-like domain found in reverse transcriptase
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: OG0020124)

Species Orthologous Gene IDs
malus_domestica MD14G1073300.v1.1
pyrus_communis pycom08g08560 pycom16g15850
rosa_wichuraiana Rw1G019750 Rw5G013010 Rw5G048260

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 505
AcoI YGGCCR 1 cut(s) 90
AcuI CTGAAG 1 cut(s) 300
AfaI GTAC 1 cut(s) 221
AfiI CCNNNNNNNGG 2 cut(s) 192, 524
AgsI TTSAA 3 cut(s) 43, 61, 437
AjnI CCWGG 2 cut(s) 249, 295
AleI CACNNNNGTG 1 cut(s) 176
AluBI AGCT 1 cut(s) 68
AluI AGCT 1 cut(s) 68
AoxI GGCC 4 cut(s) 90, 164, 194, 228
AspLEI GCGC 1 cut(s) 506
BaeGI GKGCMC 1 cut(s) 385
BalI TGGCCA 1 cut(s) 92
BcgI CGANNNNNNTGC 2 cut(s) 113, 147
BciT130I CCWGG 2 cut(s) 251, 297
BclI TGATCA 1 cut(s) 360
BfaI CTAG 2 cut(s) 353, 390
BfmI CTRYAG 1 cut(s) 30
Bme1390I CCNGG 2 cut(s) 251, 297
BmiI GGNNCC 2 cut(s) 301, 461
BmrFI CCNGG 2 cut(s) 251, 297
BmsI GCATC 1 cut(s) 121
BplI GAGNNNNNCTC 2 cut(s) 226, 258
BpuEI CTTGAG 1 cut(s) 253
BsaJI CCNNGG 3 cut(s) 108, 191, 521
BsaXI ACNNNNNCTCC 2 cut(s) 435, 465
Bsc4I CCNNNNNNNGG 2 cut(s) 192, 524
Bse1I ACTGG 2 cut(s) 83, 469
BseBI CCWGG 2 cut(s) 251, 297
BseDI CCNNGG 3 cut(s) 108, 191, 521
BseGI GGATG 3 cut(s) 243, 328, 349
BseLI CCNNNNNNNGG 2 cut(s) 192, 524
BseNI ACTGG 2 cut(s) 83, 469
BseSI GKGCMC 1 cut(s) 385
BsgI GTGCAG 2 cut(s) 174, 549
BshFI GGCC 4 cut(s) 92, 166, 196, 230
BslI CCNNNNNNNGG 2 cut(s) 192, 524
BsnI GGCC 4 cut(s) 92, 166, 196, 230
Bsp1286I GDGCHC 1 cut(s) 385
Bsp143I GATC 1 cut(s) 360
Bsp19I CCATGG 1 cut(s) 521
BspANI GGCC 4 cut(s) 92, 166, 196, 230
BspLI GGNNCC 2 cut(s) 301, 461
BsrI ACTGG 2 cut(s) 83, 469
BssECI CCNNGG 3 cut(s) 108, 191, 521
BssMI GATC 1 cut(s) 360
BssT1I CCWWGG 2 cut(s) 108, 521
Bst2UI CCWGG 2 cut(s) 251, 297
Bst4CI ACNGT 2 cut(s) 192, 387
BstC8I GCNNGC 3 cut(s) 183, 508, 512
BstDSI CCRYGG 2 cut(s) 191, 521
BstF5I GGATG 3 cut(s) 243, 328, 349
BstHHI GCGC 1 cut(s) 506
BstKTI GATC 1 cut(s) 363
BstMBI GATC 1 cut(s) 360
BstMWI GCNNNNNNNGC 1 cut(s) 44
BstNI CCWGG 2 cut(s) 251, 297
BstSCI CCNGG 2 cut(s) 249, 295
BstSFI CTRYAG 1 cut(s) 30
BstSLI GKGCMC 1 cut(s) 385
BstXI CCANNNNNNTGG 2 cut(s) 310, 522
BsuRI GGCC 4 cut(s) 92, 166, 196, 230
BtgI CCRYGG 2 cut(s) 191, 521
BtsCI GGATG 3 cut(s) 243, 328, 349
BtsI GCAGTG 2 cut(s) 213, 363
BtsIMutI CAGTG 4 cut(s) 213, 324, 363, 420
Cac8I GCNNGC 3 cut(s) 183, 508, 512
CfoI GCGC 1 cut(s) 506
Csp6I GTAC 1 cut(s) 220
CviAII CATG 1 cut(s) 522
CviQI GTAC 1 cut(s) 220
DpnI GATC 1 cut(s) 362
DpnII GATC 1 cut(s) 360
EaeI YGGCCR 1 cut(s) 90
Eco130I CCWWGG 2 cut(s) 108, 521
Eco147I AGGCCT 1 cut(s) 166
Eco57I CTGAAG 1 cut(s) 300
EcoRII CCWGG 2 cut(s) 249, 295
EcoT14I CCWWGG 2 cut(s) 108, 521
ErhI CCWWGG 2 cut(s) 108, 521
FaeI CATG 1 cut(s) 525
FaiI YATR 8 cut(s) 210, 259, 261, 267, 281, 408, 474, 523
FatI CATG 1 cut(s) 521
FbaI TGATCA 1 cut(s) 360
FokI GGATG 3 cut(s) 250, 335, 356
FspBI CTAG 2 cut(s) 353, 390
FspI TGCGCA 1 cut(s) 505
GlaI GCGC 1 cut(s) 505
HaeIII GGCC 4 cut(s) 92, 166, 196, 230
HhaI GCGC 1 cut(s) 506
Hin1II CATG 1 cut(s) 525
Hin6I GCGC 1 cut(s) 504
HinP1I GCGC 1 cut(s) 504
HinfI GANTC 2 cut(s) 241, 542
Hpy188I TCNGA 2 cut(s) 139, 539
Hpy188III TCNNGA 3 cut(s) 98, 390, 561
HpyAV CCTTC 3 cut(s) 4, 55, 285
HpyCH4III ACNGT 2 cut(s) 192, 387
HpyCH4V TGCA 6 cut(s) 155, 181, 269, 376, 480, 530
HpyF10VI GCNNNNNNNGC 1 cut(s) 44
Hsp92II CATG 1 cut(s) 525
HspAI GCGC 1 cut(s) 504
Ksp22I TGATCA 1 cut(s) 360
Kzo9I GATC 1 cut(s) 360
LmnI GCTCC 2 cut(s) 305, 465
LweI GCATC 1 cut(s) 121
MaeI CTAG 2 cut(s) 353, 390
MalI GATC 1 cut(s) 362
MboI GATC 1 cut(s) 360
MfeI CAATTG 1 cut(s) 329
MhlI GDGCHC 1 cut(s) 385
MlsI TGGCCA 1 cut(s) 92
MluCI AATT 2 cut(s) 282, 329
MluNI TGGCCA 1 cut(s) 92
MlyI GAGTC 1 cut(s) 235
MmeI TCCRAC 2 cut(s) 5, 421
MnlI CCTC 5 cut(s) 7, 177, 228, 327, 372
Mox20I TGGCCA 1 cut(s) 92
MscI TGGCCA 1 cut(s) 92
MseI TTAA 2 cut(s) 6, 51
MslI CAYNNNNRTG 2 cut(s) 176, 520
Msp20I TGGCCA 1 cut(s) 92
MspR9I CCNGG 2 cut(s) 251, 297
MunI CAATTG 1 cut(s) 329
MvaI CCWGG 2 cut(s) 251, 297
MwoI GCNNNNNNNGC 1 cut(s) 44
NcoI CCATGG 1 cut(s) 521
NdeII GATC 1 cut(s) 360
NlaIII CATG 1 cut(s) 525
NlaIV GGNNCC 2 cut(s) 301, 461
NmeAIII GCCGAG 1 cut(s) 206
NsbI TGCGCA 1 cut(s) 505
OliI CACNNNNGTG 1 cut(s) 176
PceI AGGCCT 1 cut(s) 166
PfeI GAWTC 1 cut(s) 542
PleI GAGTC 1 cut(s) 235
PpsI GAGTC 1 cut(s) 235
Psp6I CCWGG 2 cut(s) 249, 295
PspGI CCWGG 2 cut(s) 249, 295
PspN4I GGNNCC 2 cut(s) 301, 461
RsaI GTAC 1 cut(s) 221
RsaNI GTAC 1 cut(s) 220
RseI CAYNNNNRTG 2 cut(s) 176, 520
SaqAI TTAA 2 cut(s) 6, 51
Sau3AI GATC 1 cut(s) 360
SchI GAGTC 1 cut(s) 235
ScrFI CCNGG 2 cut(s) 251, 297
SduI GDGCHC 1 cut(s) 385
SetI ASST 6 cut(s) 70, 148, 154, 277, 294, 555
SfaNI GCATC 1 cut(s) 121
SfcI CTRYAG 1 cut(s) 30
SmiMI CAYNNNNRTG 2 cut(s) 176, 520
SmlI CTYRAG 1 cut(s) 232
SmoI CTYRAG 1 cut(s) 232
Sse9I AATT 2 cut(s) 282, 329
SseBI AGGCCT 1 cut(s) 166
SspMI CTAG 2 cut(s) 353, 390
StuI AGGCCT 1 cut(s) 166
StyD4I CCNGG 2 cut(s) 249, 295
StyI CCWWGG 2 cut(s) 108, 521
TaaI ACNGT 2 cut(s) 192, 387
TaqI TCGA 1 cut(s) 123
TasI AATT 2 cut(s) 282, 329
TfiI GAWTC 1 cut(s) 542
Tru1I TTAA 2 cut(s) 6, 51
Tru9I TTAA 2 cut(s) 6, 51
TscAI CASTG 4 cut(s) 220, 324, 363, 427
TspDTI ATGAA 3 cut(s) 339, 360, 410
TspRI CASTG 4 cut(s) 220, 324, 363, 427
XbaI TCTAGA 1 cut(s) 389
XcmI CCANNNNNNNNNTGG 3 cut(s) 85, 257, 470
XspI CTAG 2 cut(s) 353, 390
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.