Rroxscaffold_7G00214170

Prokaryotic RING finger family 4

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000842
Physical Location & Seq
Forward (+)
64718798 .. 64724686
5889 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00214170.1

Sequence Viewer

Length: 762 bp
ATGCGATCTGTTAAGGACGATATTTTCCATACTCTTCAAAACAACTTCGAACTGGTCATTGACTCGATCAACTACTTGTGTGACCCTCCTTGGAGCATCAAACCTCTTATCAGAGATATTCATCATATGGTCAAAGAGTTCGAAGTAATTTCCTTCAAGCATATTCCTCGTGAAGCTAACTGCGTTGCGAATGCTATCACAAGCCTAGGCCATGACGCTTTAGACCCAAACATATGGACCAAAAGATTGTCACACACTTGCTCTCTCGCTTTTAATTTTGATCTTTTCAATGTTCTTGGGTTGGTGGTGCAAAAGAGGATTGGAGCAAGGAAGAAGGGTGGGTCTGCTGTAGGTGCATTGGTGGATTGGTATTTGGGACAAAGAGATGTGGGAATTGAAACGGTCTGGAGAGGAAAGGAGGCCAGGATGATTCTCGAGGTTCTAAGGGAGCAAATGGACGACGGCGATGCAGCCAAGGCAGGGAGGAGGAGTTTCAAGCAGCGGCTGAGATTTACCAGAATCGGGTGCTGCGGCGCCGCCTGGCTGGAGGAGGCTTTGAGGAGGTTATACATTTTGGTCAACAGCTGTCAAGACCGGAGCTATTTGTATATACTTGCAATGGGATGTAATGGAGGATCGGAGATGGCAAAAGTAAGAACTTATGGGTTGCATCGGAGCCCTGTAGATAACAGAGCAGCGGGTGCTAATTCTTCAAGATTCACAAGTTGGGCTGCTTTTGGATTGCCTCCAGGACCCTCATAA
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
zf-C3HC4_3

Protein Analysis

253

Amino Acids

28.44

Weight (kDa)

9.22

Isoelectric Point (pI)

39.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 33 - 66 3.1e-06 Reverse transcriptase-like
MCAfunc PF19584 182 - 211 2.7e-10 MCAfunc 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
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Orthologous Genes (Group: OG0000842)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g15420 FvH4_2g00771 FvH4_3g29363
malus_domestica MD02G1293300.v1.1 MD06G1023000.v1.1 MD09G1232900.v1.1
prunus_persica Prupe.1G181500_v2.0.a1 Prupe.1G572100_v2.0.a1 Prupe.2G095500_v2.0.a1 Prupe.3G150400_v2.0.a1 Prupe.3G156200_v2.0.a1 Prupe.4G274400_v2.0.a1 Prupe.5G070700_v2.0.a1 Prupe.7G038000_v2.0.a1 Prupe.7G164000_v2.0.a1 Prupe.8G056500_v2.0.a1
pyrus_communis pycom04g02040 pycom05g04600 pycom07g05610 pycom08g16130 pycom11g16470 pycom12g07830 pycom15g38190 pycom215g00040
rosa_chinensis RchiOBHm_Chr1g0348881 RchiOBHm_Chr5g0032951 RchiOBHm_Chr6g0273271 RchiOBHm_Chr7g0218191 RchiOBHm_Chr7g0223721
rosa_multiflora Rmu_co8286615.1_g000001 Rmu_sc0001354.1_g000002 Rmu_sc0001925.1_g000003 Rmu_sc0001925.1_g000005 Rmu_sc0002221.1_g000004 Rmu_sc0002316.1_g000096 Rmu_sc0003291.1_g000005 Rmu_sc0003413.1_g000005 Rmu_sc0003542.1_g000011 Rmu_sc0004035.1_g000003 Rmu_sc0004035.1_g000004 Rmu_sc0004145.1_g000016 Rmu_sc0004660.1_g000004 Rmu_sc0005999.1_g000006 Rmu_sc0006123.1_g000002 Rmu_sc0006586.1_g000006 Rmu_sc0006889.1_g000029 Rmu_sc0008035.1_g000014 Rmu_sc0011962.1_g000002 Rmu_sc0029950.1_g000001 Rmu_sc0042409.1_g000001 Rmu_ssc0000238.1_g000013
rosa_roxburghii Rroxscaffold_2G00137410 Rroxscaffold_4G00312010 Rroxscaffold_4G00320800 Rroxscaffold_5G00341720 Rroxscaffold_5G00353530 Rroxscaffold_5G00360290 Rroxscaffold_7G00214170 Rroxscaffold_7G00215920
rosa_rugosa Rorug02G0157000
rosa_samantha Rh4BG196500 Rh6CG346400 Rh7BG241100 Rh7DG316300
rosa_wichuraiana Rw1G003610 Rw7G012170 Rw7G030150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 533
AciI CCGC 4 cut(s) 502, 531, 537, 698
AclWI GGATC 1 cut(s) 643
AcyI GRCGYC 1 cut(s) 534
AfiI CCNNNNNNNGG 2 cut(s) 480, 522
AgsI TTSAA 6 cut(s) 38, 157, 289, 398, 496, 714
AjnI CCWGG 3 cut(s) 422, 539, 748
AluBI AGCT 3 cut(s) 176, 585, 600
AluI AGCT 3 cut(s) 176, 585, 600
AlwI GGATC 1 cut(s) 643
AlwNI CAGNNNCTG 1 cut(s) 505
Ama87I CYCGRG 1 cut(s) 434
AoxI GGCC 2 cut(s) 208, 420
ApeKI GCWGC 5 cut(s) 470, 499, 528, 695, 731
AspA2I CCTAGG 1 cut(s) 205
AspLEI GCGC 1 cut(s) 536
AspS9I GGNCC 2 cut(s) 237, 752
AsuII TTCGAA 2 cut(s) 48, 141
AvaI CYCGRG 1 cut(s) 434
AvaII GGWCC 2 cut(s) 237, 752
AvrII CCTAGG 1 cut(s) 205
BanI GGYRCC 1 cut(s) 533
BanII GRGCYC 1 cut(s) 680
BauI CACGAG 1 cut(s) 168
BbvI GCAGC 5 cut(s) 482, 511, 515, 707, 718
BccI CCATC 1 cut(s) 637
BceAI ACGGC 1 cut(s) 478
BcgI CGANNNNNNTGC 4 cut(s) 149, 183, 449, 483
BciT130I CCWGG 3 cut(s) 424, 541, 750
BfaI CTAG 1 cut(s) 206
BfmI CTRYAG 2 cut(s) 348, 681
BfoI RGCGCY 1 cut(s) 537
BisI GCNGC 8 cut(s) 471, 500, 503, 529, 532, 537, 696, 732
BlnI CCTAGG 1 cut(s) 205
BlsI GCNGC 8 cut(s) 472, 501, 504, 530, 533, 538, 697, 733
Bme1390I CCNGG 3 cut(s) 424, 541, 750
Bme18I GGWCC 2 cut(s) 237, 752
BmeT110I CYCGRG 1 cut(s) 434
BmgT120I GGNCC 2 cut(s) 237, 752
BmiI GGNNCC 3 cut(s) 535, 677, 754
BmrFI CCNGG 3 cut(s) 424, 541, 750
BmsI GCATC 3 cut(s) 105, 457, 679
BpmI CTGGAG 3 cut(s) 427, 566, 732
Bpu14I TTCGAA 2 cut(s) 48, 141
BsaBI GATNNNNATC 1 cut(s) 120
BsaHI GRCGYC 1 cut(s) 534
BsaJI CCNNGG 3 cut(s) 89, 205, 474
BsaWI WCCGGW 1 cut(s) 594
BsaXI ACNNNNNCTCC 2 cut(s) 475, 505
Bsc4I CCNNNNNNNGG 2 cut(s) 480, 522
Bse1I ACTGG 1 cut(s) 57
Bse3DI GCAATG 1 cut(s) 624
Bse8I GATNNNNATC 1 cut(s) 120
BseBI CCWGG 3 cut(s) 424, 541, 750
BseDI CCNNGG 3 cut(s) 89, 205, 474
BseGI GGATG 2 cut(s) 432, 629
BseJI GATNNNNATC 1 cut(s) 120
BseLI CCNNNNNNNGG 2 cut(s) 480, 522
BseMI GCAATG 1 cut(s) 624
BseMII CTCAG 1 cut(s) 497
BseNI ACTGG 1 cut(s) 57
BseRI GAGGAG 4 cut(s) 499, 502, 563, 574
BseXI GCAGC 5 cut(s) 482, 511, 515, 707, 718
BshFI GGCC 2 cut(s) 210, 422
BshNI GGYRCC 1 cut(s) 533
BsiHKCI CYCGRG 1 cut(s) 434
BsiSI CCGG 1 cut(s) 595
BslFI GGGAC 1 cut(s) 390
BslI CCNNNNNNNGG 2 cut(s) 480, 522
BsmFI GGGAC 1 cut(s) 390
BsmI GAATGC 1 cut(s) 196
BsnI GGCC 2 cut(s) 210, 422
BsoBI CYCGRG 1 cut(s) 434
Bsp119I TTCGAA 2 cut(s) 48, 141
Bsp1286I GDGCHC 1 cut(s) 680
Bsp143I GATC 4 cut(s) 5, 66, 280, 635
BspACI CCGC 4 cut(s) 502, 531, 537, 698
BspANI GGCC 2 cut(s) 210, 422
BspCNI CTCAG 1 cut(s) 498
BspLI GGNNCC 3 cut(s) 535, 677, 754
BspPI GGATC 1 cut(s) 643
BspT104I TTCGAA 2 cut(s) 48, 141
BspT107I GGYRCC 1 cut(s) 533
BsrDI GCAATG 1 cut(s) 624
BsrI ACTGG 1 cut(s) 57
BssECI CCNNGG 3 cut(s) 89, 205, 474
BssMI GATC 4 cut(s) 5, 66, 280, 635
BssNI GRCGYC 1 cut(s) 534
BssSI CACGAG 1 cut(s) 168
BssT1I CCWWGG 3 cut(s) 89, 205, 474
Bst2BI CACGAG 1 cut(s) 168
Bst2UI CCWGG 3 cut(s) 424, 541, 750
Bst4CI ACNGT 1 cut(s) 403
Bst6I CTCTTC 1 cut(s) 39
BstACI GRCGYC 1 cut(s) 534
BstAPI GCANNNNNTGC 1 cut(s) 701
BstBI TTCGAA 2 cut(s) 48, 141
BstDEI CTNAG 2 cut(s) 443, 506
BstF5I GGATG 2 cut(s) 432, 629
BstH2I RGCGCY 1 cut(s) 537
BstHHI GCGC 1 cut(s) 536
BstKTI GATC 4 cut(s) 8, 69, 283, 638
BstMBI GATC 4 cut(s) 5, 66, 280, 635
BstMWI GCNNNNNNNGC 3 cut(s) 353, 476, 701
BstNI CCWGG 3 cut(s) 424, 541, 750
BstSCI CCNGG 3 cut(s) 422, 539, 748
BstSFI CTRYAG 2 cut(s) 348, 681
BstV1I GCAGC 5 cut(s) 482, 511, 515, 707, 718
BstXI CCANNNNNNTGG 1 cut(s) 234
BsuRI GGCC 2 cut(s) 210, 422
BtgZI GCGATG 1 cut(s) 480
BtsCI GGATG 2 cut(s) 432, 629
CaiI CAGNNNCTG 1 cut(s) 505
CfoI GCGC 1 cut(s) 536
Cfr13I GGNCC 2 cut(s) 237, 752
CseI GACGC 1 cut(s) 224
CviAII CATG 1 cut(s) 212
DdeI CTNAG 2 cut(s) 443, 506
DinI GGCGCC 1 cut(s) 535
DpnI GATC 4 cut(s) 7, 68, 282, 637
DpnII GATC 4 cut(s) 5, 66, 280, 635
Eam1104I CTCTTC 1 cut(s) 39
EarI CTCTTC 1 cut(s) 39
Eco130I CCWWGG 3 cut(s) 89, 205, 474
Eco24I GRGCYC 1 cut(s) 680
Eco47I GGWCC 2 cut(s) 237, 752
Eco88I CYCGRG 1 cut(s) 434
EcoO109I RGGNCCY 1 cut(s) 752
EcoRII CCWGG 3 cut(s) 422, 539, 748
EcoT14I CCWWGG 3 cut(s) 89, 205, 474
EcoT38I GRGCYC 1 cut(s) 680
EgeI GGCGCC 1 cut(s) 535
EheI GGCGCC 1 cut(s) 535
ErhI CCWWGG 3 cut(s) 89, 205, 474
FaeI CATG 1 cut(s) 215
FaqI GGGAC 1 cut(s) 390
FatI CATG 1 cut(s) 211
FauI CCCGC 1 cut(s) 691
FauNDI CATATG 2 cut(s) 126, 233
Fnu4HI GCNGC 8 cut(s) 471, 500, 503, 529, 532, 537, 696, 732
FokI GGATG 2 cut(s) 439, 636
FriOI GRGCYC 1 cut(s) 680
Fsp4HI GCNGC 8 cut(s) 471, 500, 503, 529, 532, 537, 696, 732
FspBI CTAG 1 cut(s) 206
GlaI GCGC 1 cut(s) 535
GluI GCNGC 8 cut(s) 471, 500, 503, 529, 532, 537, 696, 732
GsuI CTGGAG 3 cut(s) 427, 566, 732
HaeII RGCGCY 1 cut(s) 537
HaeIII GGCC 2 cut(s) 210, 422
HapII CCGG 1 cut(s) 595
HgaI GACGC 1 cut(s) 224
HhaI GCGC 1 cut(s) 536
Hin1I GRCGYC 1 cut(s) 534
Hin1II CATG 1 cut(s) 215
Hin6I GCGC 1 cut(s) 534
HinP1I GCGC 1 cut(s) 534
HincII GTYRAC 1 cut(s) 580
HindII GTYRAC 1 cut(s) 580
HinfI GANTC 4 cut(s) 62, 430, 519, 717
HpaII CCGG 1 cut(s) 595
Hpy166II GTNNAC 1 cut(s) 580
Hpy188I TCNGA 3 cut(s) 113, 640, 675
Hpy188III TCNNGA 5 cut(s) 170, 406, 434, 590, 714
Hpy8I GTNNAC 1 cut(s) 580
Hpy99I CGWCG 1 cut(s) 464
HpyAV CCTTC 2 cut(s) 163, 328
HpyCH4III ACNGT 1 cut(s) 403
HpyCH4V TGCA 5 cut(s) 310, 356, 470, 617, 670
HpyF10VI GCNNNNNNNGC 3 cut(s) 353, 476, 701
HpyF3I CTNAG 2 cut(s) 443, 506
Hsp92I GRCGYC 1 cut(s) 534
Hsp92II CATG 1 cut(s) 215
HspAI GCGC 1 cut(s) 534
KasI GGCGCC 1 cut(s) 533
Kzo9I GATC 4 cut(s) 5, 66, 280, 635
LmnI GCTCC 5 cut(s) 93, 323, 448, 597, 675
Lsp1109I GCAGC 5 cut(s) 482, 511, 515, 707, 718
LweI GCATC 3 cut(s) 105, 457, 679
MaeI CTAG 1 cut(s) 206
MaeIII GTNAC 2 cut(s) 80, 249
MalI GATC 4 cut(s) 7, 68, 282, 637
MboI GATC 4 cut(s) 5, 66, 280, 635
MboII GAAGA 3 cut(s) 26, 343, 702
MhlI GDGCHC 1 cut(s) 680
MluCI AATT 4 cut(s) 147, 274, 393, 706
Mly113I GGCGCC 1 cut(s) 534
MlyI GAGTC 1 cut(s) 56
MseI TTAA 2 cut(s) 12, 273
MspA1I CMGCKG 3 cut(s) 502, 585, 698
MspI CCGG 1 cut(s) 595
MspR9I CCNGG 3 cut(s) 424, 541, 750
Mva1269I GAATGC 1 cut(s) 196
MvaI CCWGG 3 cut(s) 424, 541, 750
MwoI GCNNNNNNNGC 3 cut(s) 353, 476, 701
NarI GGCGCC 1 cut(s) 534
NdeI CATATG 2 cut(s) 126, 233
NdeII GATC 4 cut(s) 5, 66, 280, 635
NlaIII CATG 1 cut(s) 215
NlaIV GGNNCC 3 cut(s) 535, 677, 754
NmuCI GTSAC 2 cut(s) 80, 249
NspV TTCGAA 2 cut(s) 48, 141
PaeR7I CTCGAG 1 cut(s) 434
PctI GAATGC 1 cut(s) 196
PfeI GAWTC 3 cut(s) 430, 519, 717
PfoI TCCNGGA 1 cut(s) 748
PkrI GCNGC 8 cut(s) 472, 501, 504, 530, 533, 538, 697, 733
PleI GAGTC 1 cut(s) 56
PluTI GGCGCC 1 cut(s) 537
PpsI GAGTC 1 cut(s) 56
PpuMI RGGWCCY 1 cut(s) 752
Psp5II RGGWCCY 1 cut(s) 752
Psp6I CCWGG 3 cut(s) 422, 539, 748
PspGI CCWGG 3 cut(s) 422, 539, 748
PspN4I GGNNCC 3 cut(s) 535, 677, 754
PspPI GGNCC 2 cut(s) 237, 752
PspPPI RGGWCCY 1 cut(s) 752
PstNI CAGNNNCTG 1 cut(s) 505
PvuII CAGCTG 1 cut(s) 585
SaqAI TTAA 2 cut(s) 12, 273
SatI GCNGC 8 cut(s) 471, 500, 503, 529, 532, 537, 696, 732
Sau3AI GATC 4 cut(s) 5, 66, 280, 635
Sau96I GGNCC 2 cut(s) 237, 752
SchI GAGTC 1 cut(s) 56
ScrFI CCNGG 3 cut(s) 424, 541, 750
SduI GDGCHC 1 cut(s) 680
SetI ASST 7 cut(s) 106, 178, 355, 441, 566, 587, 602
SfaNI GCATC 3 cut(s) 105, 457, 679
SfcI CTRYAG 2 cut(s) 348, 681
SfoI GGCGCC 1 cut(s) 535
Sfr274I CTCGAG 1 cut(s) 434
SfuI TTCGAA 2 cut(s) 48, 141
SinI GGWCC 2 cut(s) 237, 752
SlaI CTCGAG 1 cut(s) 434
SmlI CTYRAG 1 cut(s) 434
SmoI CTYRAG 1 cut(s) 434
Sse9I AATT 4 cut(s) 147, 274, 393, 706
SsiI CCGC 4 cut(s) 502, 531, 537, 698
SspDI GGCGCC 1 cut(s) 533
SspMI CTAG 1 cut(s) 206
StyD4I CCNGG 3 cut(s) 422, 539, 748
StyI CCWWGG 3 cut(s) 89, 205, 474
TaaI ACNGT 1 cut(s) 403
TaqI TCGA 4 cut(s) 48, 65, 141, 435
TasI AATT 4 cut(s) 147, 274, 393, 706
TauI GCSGC 3 cut(s) 505, 534, 539
TfiI GAWTC 3 cut(s) 430, 519, 717
Tru1I TTAA 2 cut(s) 12, 273
Tru9I TTAA 2 cut(s) 12, 273
TseFI GTSAC 2 cut(s) 80, 249
TseI GCWGC 5 cut(s) 470, 499, 528, 695, 731
Tsp45I GTSAC 2 cut(s) 80, 249
TspDTI ATGAA 1 cut(s) 110
VpaK11BI GGWCC 2 cut(s) 237, 752
XhoI CTCGAG 1 cut(s) 434
XmaJI CCTAGG 1 cut(s) 205
XspI CTAG 1 cut(s) 206
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.