Rw6G009830

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0000562
Physical Location & Seq
Forward (+)
16631711 .. 16632726
1016 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G009830.1

Sequence Viewer

Length: 690 bp
ATGTGGAATGAGCTAGATGTTTATAGACCTCATACAATAGAGGCTAGTGTTTTGTTAAAAAGAGCTGAGGAGGACAAGATTTTTCAACTCCTTGCAAGCGTAAGCTCAGATTATGAAGATTTGAGAAGTCATATTCTTATGAATACTGAGCTACCATCTTTCAACAATGTGTGTGCTACCATTAAAAGAGAAGAAGTTCAAAAAAAGGTGATGAATATGGAGACCAAGACAGGTGCATCTGAAACTAGAGCTTATGCTTCTAATCACAGGCAAGTTGAAGCTAAAGTGTACAAAGGCAAGAGACCTGACTTGAAATGCAGCTACTGTGAGGGTGTTGGACATGTCAAGGATAGATGTTGGGTTCTCTATCCTGAACAGAAGCCAAAGTTTCTGAAGGAAGGCAAAGGTTCTCAAAAGAGTTGGAATCCATCAAGAGCAAACCTTGCAGCAGCCTCCTCTCTCTCTTCTGAGGGTATGCTGAACTTCACCTCCAATCCGACTTCTTTAATCAATAAATTTGCTGTCTATCTCAGCAAGAAGCAGATGCATAGTGGAGGTGAAGAGATAACCATGTCTGGGAGTGAAGATCACACTGCACTCCTTGGAAAATTTGTTGGCTTTCTTGCAGAAACTAACTGTATTCCACATGAAGAAGCTTCAAGATCTCATCACCAAGAAGACGATTGGTGA
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
Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag rve

Protein Analysis

229

Amino Acids

25.9

Weight (kDa)

6.76

Isoelectric Point (pI)

46.75

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
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Orthologous Genes (Group: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 2 cut(s) 515, 608
AcuI CTGAAG 1 cut(s) 413
AfaI GTAC 1 cut(s) 290
AfiI CCNNNNNNNGG 1 cut(s) 576
AflIII ACRYGT 1 cut(s) 340
AgsI TTSAA 6 cut(s) 86, 163, 200, 278, 313, 660
AloI GAACNNNNNNTCC 2 cut(s) 473, 505
AluBI AGCT 8 cut(s) 13, 65, 105, 151, 251, 281, 321, 656
AluI AGCT 8 cut(s) 13, 65, 105, 151, 251, 281, 321, 656
Alw26I GTCTC 2 cut(s) 215, 295
AlwNI CAGNNNCTG 1 cut(s) 324
ApeKI GCWGC 3 cut(s) 318, 446, 449
ApoI RAATTY 2 cut(s) 515, 608
Asp700I GAANNNNTTC 1 cut(s) 195
AsuHPI GGTGA 4 cut(s) 220, 478, 569, 662
BbsI GAAGAC 1 cut(s) 684
BbvCI CCTCAGC 1 cut(s) 66
BbvI GCAGC 3 cut(s) 330, 458, 461
BccI CCATC 2 cut(s) 163, 436
BcoDI GTCTC 2 cut(s) 215, 295
BfaI CTAG 3 cut(s) 14, 45, 246
BglII AGATCT 1 cut(s) 662
BisI GCNGC 3 cut(s) 319, 447, 450
BlsI GCNGC 3 cut(s) 320, 448, 451
BmsI GCATC 2 cut(s) 245, 534
BpiI GAAGAC 1 cut(s) 684
Bpu10I CCTNAGC 1 cut(s) 66
BsaI GGTCTC 2 cut(s) 215, 295
BsaJI CCNNGG 1 cut(s) 601
BsaXI ACNNNNNCTCC 2 cut(s) 473, 503
Bsc4I CCNNNNNNNGG 1 cut(s) 576
BseDI CCNNGG 1 cut(s) 601
BseLI CCNNNNNNNGG 1 cut(s) 576
BseMII CTCAG 5 cut(s) 57, 120, 138, 459, 544
BseRI GAGGAG 2 cut(s) 83, 445
BseXI GCAGC 3 cut(s) 330, 458, 461
BsgI GTGCAG 1 cut(s) 579
BslI CCNNNNNNNGG 1 cut(s) 576
BsmAI GTCTC 2 cut(s) 215, 295
Bso31I GGTCTC 2 cut(s) 215, 295
Bsp1407I TGTACA 1 cut(s) 288
Bsp143I GATC 2 cut(s) 586, 662
BspCNI CTCAG 5 cut(s) 58, 119, 139, 460, 543
BspTNI GGTCTC 2 cut(s) 215, 295
BsrGI TGTACA 1 cut(s) 288
BssECI CCNNGG 1 cut(s) 601
BssMI GATC 2 cut(s) 586, 662
BssT1I CCWWGG 1 cut(s) 601
Bst4CI ACNGT 2 cut(s) 326, 638
Bst6I CTCTTC 2 cut(s) 469, 555
BstAPI GCANNNNNTGC 1 cut(s) 443
BstAUI TGTACA 1 cut(s) 288
BstC8I GCNNGC 1 cut(s) 97
BstDEI CTNAG 5 cut(s) 66, 106, 147, 468, 530
BstKTI GATC 2 cut(s) 589, 665
BstMAI GTCTC 2 cut(s) 215, 295
BstMBI GATC 2 cut(s) 586, 662
BstMWI GCNNNNNNNGC 1 cut(s) 443
BstNSI RCATGY 1 cut(s) 344
BstV1I GCAGC 3 cut(s) 330, 458, 461
BstV2I GAAGAC 1 cut(s) 684
BstX2I RGATCY 1 cut(s) 662
BstYI RGATCY 1 cut(s) 662
BtsI GCAGTG 1 cut(s) 591
BtsIMutI CAGTG 1 cut(s) 591
Cac8I GCNNGC 1 cut(s) 97
CaiI CAGNNNCTG 1 cut(s) 324
Csp6I GTAC 1 cut(s) 289
CviAII CATG 3 cut(s) 341, 571, 647
CviQI GTAC 1 cut(s) 289
DdeI CTNAG 5 cut(s) 66, 106, 147, 468, 530
DpnI GATC 2 cut(s) 588, 664
DpnII GATC 2 cut(s) 586, 662
Eam1104I CTCTTC 2 cut(s) 469, 555
EarI CTCTTC 2 cut(s) 469, 555
Eco130I CCWWGG 1 cut(s) 601
Eco31I GGTCTC 2 cut(s) 215, 295
Eco57I CTGAAG 1 cut(s) 413
EcoT14I CCWWGG 1 cut(s) 601
EcoT22I ATGCAT 1 cut(s) 549
ErhI CCWWGG 1 cut(s) 601
FaeI CATG 3 cut(s) 344, 574, 650
FatI CATG 3 cut(s) 340, 570, 646
Fnu4HI GCNGC 3 cut(s) 319, 447, 450
Fsp4HI GCNGC 3 cut(s) 319, 447, 450
FspBI CTAG 3 cut(s) 14, 45, 246
GluI GCNGC 3 cut(s) 319, 447, 450
Hin1II CATG 3 cut(s) 344, 574, 650
HindIII AAGCTT 1 cut(s) 654
HinfI GANTC 1 cut(s) 424
HphI GGTGA 4 cut(s) 220, 478, 569, 662
Hpy166II GTNNAC 1 cut(s) 289
Hpy188I TCNGA 5 cut(s) 109, 241, 393, 469, 498
Hpy188III TCNNGA 3 cut(s) 371, 432, 660
Hpy8I GTNNAC 1 cut(s) 289
HpyAV CCTTC 2 cut(s) 388, 392
HpyCH4III ACNGT 2 cut(s) 326, 638
HpyCH4V TGCA 7 cut(s) 95, 236, 318, 446, 547, 596, 626
HpyF10VI GCNNNNNNNGC 1 cut(s) 443
HpyF3I CTNAG 5 cut(s) 66, 106, 147, 468, 530
Hsp92II CATG 3 cut(s) 344, 574, 650
Kzo9I GATC 2 cut(s) 586, 662
LpnPI CCDG 5 cut(s) 216, 253, 318, 384, 561
Lsp1109I GCAGC 3 cut(s) 330, 458, 461
LweI GCATC 2 cut(s) 245, 534
MaeI CTAG 3 cut(s) 14, 45, 246
MalI GATC 2 cut(s) 588, 664
MboI GATC 2 cut(s) 586, 662
MboII GAAGA 7 cut(s) 128, 203, 456, 572, 596, 662, 689
MflI RGATCY 1 cut(s) 662
MluCI AATT 2 cut(s) 515, 608
MmeI TCCRAC 3 cut(s) 316, 401, 521
Mph1103I ATGCAT 1 cut(s) 549
MroXI GAANNNNTTC 1 cut(s) 195
MseI TTAA 3 cut(s) 56, 183, 506
MwoI GCNNNNNNNGC 1 cut(s) 443
NdeII GATC 2 cut(s) 586, 662
NlaIII CATG 3 cut(s) 344, 574, 650
NsiI ATGCAT 1 cut(s) 549
NspI RCATGY 1 cut(s) 344
PciI ACATGT 1 cut(s) 340
PdmI GAANNNNTTC 1 cut(s) 195
PfeI GAWTC 1 cut(s) 424
PkrI GCNGC 3 cut(s) 320, 448, 451
PscI ACATGT 1 cut(s) 340
PstNI CAGNNNCTG 1 cut(s) 324
PsuI RGATCY 1 cut(s) 662
RsaI GTAC 1 cut(s) 290
RsaNI GTAC 1 cut(s) 289
SaqAI TTAA 3 cut(s) 56, 183, 506
SatI GCNGC 3 cut(s) 319, 447, 450
Sau3AI GATC 2 cut(s) 586, 662
SfaNI GCATC 2 cut(s) 245, 534
Sse9I AATT 2 cut(s) 515, 608
SspMI CTAG 3 cut(s) 14, 45, 246
StyI CCWWGG 1 cut(s) 601
TaaI ACNGT 2 cut(s) 326, 638
TasI AATT 2 cut(s) 515, 608
TatI WGTACW 1 cut(s) 288
TfiI GAWTC 1 cut(s) 424
Tru1I TTAA 3 cut(s) 56, 183, 506
Tru9I TTAA 3 cut(s) 56, 183, 506
TscAI CASTG 1 cut(s) 598
TseI GCWGC 3 cut(s) 318, 446, 449
TspDTI ATGAA 4 cut(s) 129, 155, 227, 663
TspRI CASTG 1 cut(s) 598
XapI RAATTY 2 cut(s) 515, 608
XceI RCATGY 1 cut(s) 344
XmnI GAANNNNTTC 1 cut(s) 195
XspI CTAG 3 cut(s) 14, 45, 246
Zsp2I ATGCAT 1 cut(s) 549
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.