Rroxscaffold_2G00112400

CCR4-associated factor 1 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000757
Physical Location & Seq
Reverse (-)
37566165 .. 37567320
1156 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00112400.1

Sequence Viewer

Length: 858 bp
ATGCAAGCAGTCGAAGGTACACCATGTCTGCAGTTTCCCTTACCTCCTGTGCCGGTCATAAACCCTTACTTGGGTACAATGGAGTACTGCTACCCAATTGTTCCCCTTCCCATGCATGATCACGACCCTCTTCCTATACCTGGCGTCATATATCCGGTTTGGAAGAGCAATTTAGTGCCGGCGTTTTCGCAGATTTGGAAACTAATTAGCCAAGGTGGCCGCTGGTTCGCTTCTATAGACACAGAATTCCCTGGCACAATTTATGATTACGACAAAGGGCGTCTCCATGACCCTCTGTACAAGTATATGATGATGAAGAAGAACGTGAACGACACCAACATAATCCAGTTGGGTCTCACACTTGCAGACCTTCACCAAAACATCTACACCTGGGAGTTCAATTTCTGCGACTTTGATATTGATCGTGATCGTCAAGCCGAGGACTCAATTCAGTTACTTAAGGGTCAAGGAATAGATTTCTGGAGAAACAAGGAGGATGGTATACCTTCGGATGAGTTCGCGAGAATGTGTCGGGAAGTTGGGCTGTTAGAAAACAGATTGGTAGAGTTGACATGGGTGGGTTTCCAGATCTCATCTGATTTGGGCTACTTCACCAAGATCCTCACTGGGCAAAAGTTGCCAGACGATTTTGAGGAGTACAAGAAGGCTGAAAGGATCTACTTTGGGGATAGGGTGTGTGATGTCAAGGACATGATGAACTCGTTTCCGACACTGAAAGGCGGTTTGATCAAAGTGGCGGAGAAACTGGGGATTGCTCGTGTGGCCGGCAAGAGTCACCAGGCCGGCTCTGATAGTCTGTTGACATATCTAAGCTTCATCAAGCTGAGCTCAATGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03018 map03018
Pfam Domains
Protein Families
CAF1

Protein Analysis

285

Amino Acids

32.63

Weight (kDa)

5.19

Isoelectric Point (pI)

30.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CAF1 PF04857 53 - 169 3.3e-09 CAF1 family ribonuclease
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 502
AccII CGCG 1 cut(s) 521
AciI CCGC 3 cut(s) 220, 741, 758
AclWI GGATC 2 cut(s) 613, 683
AcoI YGGCCR 2 cut(s) 217, 783
AcsI RAATTY 1 cut(s) 245
AcyI GRCGYC 2 cut(s) 144, 280
AfaI GTAC 5 cut(s) 19, 76, 86, 299, 659
AfiI CCNNNNNNNGG 3 cut(s) 70, 71, 140
AflII CTTAAG 1 cut(s) 458
AgsI TTSAA 1 cut(s) 400
AjnI CCWGG 4 cut(s) 139, 250, 389, 798
AluBI AGCT 3 cut(s) 834, 844, 849
AluI AGCT 3 cut(s) 834, 844, 849
Alw21I GWGCWC 1 cut(s) 851
Alw26I GTCTC 2 cut(s) 287, 359
AlwI GGATC 2 cut(s) 613, 683
AoxI GGCC 3 cut(s) 217, 783, 801
ApoI RAATTY 1 cut(s) 245
AsuHPI GGTGA 3 cut(s) 365, 604, 788
BanII GRGCYC 1 cut(s) 851
BauI CACGAG 1 cut(s) 777
Bbv12I GWGCWC 1 cut(s) 851
BccI CCATC 1 cut(s) 491
BciT130I CCWGG 4 cut(s) 141, 252, 391, 800
BclI TGATCA 2 cut(s) 118, 747
BcoDI GTCTC 2 cut(s) 287, 359
BfmI CTRYAG 2 cut(s) 29, 234
BfrI CTTAAG 1 cut(s) 458
BglI GCCNNNNNGGC 1 cut(s) 216
BglII AGATCT 1 cut(s) 588
BisI GCNGC 1 cut(s) 220
BlpI GCTNAGC 1 cut(s) 845
BlsI GCNGC 1 cut(s) 221
BmcAI AGTACT 1 cut(s) 86
Bme1390I CCNGG 4 cut(s) 141, 252, 391, 800
BmrFI CCNGG 4 cut(s) 141, 252, 391, 800
BmrI ACTGGG 2 cut(s) 636, 776
BmuI ACTGGG 2 cut(s) 636, 776
BpmI CTGGAG 1 cut(s) 502
Bpu1102I GCTNAGC 1 cut(s) 845
BsaBI GATNNNNATC 2 cut(s) 420, 426
BsaHI GRCGYC 2 cut(s) 144, 280
BsaI GGTCTC 1 cut(s) 359
BsaJI CCNNGG 4 cut(s) 211, 250, 390, 438
BsaWI WCCGGW 1 cut(s) 154
Bsc4I CCNNNNNNNGG 3 cut(s) 70, 71, 140
Bse118I RCCGGY 4 cut(s) 52, 178, 785, 803
Bse1I ACTGG 3 cut(s) 346, 631, 771
Bse8I GATNNNNATC 2 cut(s) 420, 426
BseBI CCWGG 4 cut(s) 141, 252, 391, 800
BseDI CCNNGG 4 cut(s) 211, 250, 390, 438
BseGI GGATG 2 cut(s) 502, 517
BseJI GATNNNNATC 2 cut(s) 420, 426
BseLI CCNNNNNNNGG 3 cut(s) 70, 71, 140
BseMII CTCAG 1 cut(s) 836
BseNI ACTGG 3 cut(s) 346, 631, 771
BseRI GAGGAG 1 cut(s) 668
Bsh1236I CGCG 1 cut(s) 521
BshFI GGCC 3 cut(s) 219, 785, 803
BsiHKAI GWGCWC 1 cut(s) 851
BsiSI CCGG 5 cut(s) 53, 155, 179, 786, 804
BslI CCNNNNNNNGG 3 cut(s) 70, 71, 140
BsmAI GTCTC 2 cut(s) 287, 359
BsmBI CGTCTC 1 cut(s) 287
BsnI GGCC 3 cut(s) 219, 785, 803
Bso31I GGTCTC 1 cut(s) 359
Bsp1286I GDGCHC 1 cut(s) 851
Bsp1407I TGTACA 1 cut(s) 297
Bsp143I GATC 7 cut(s) 118, 421, 427, 588, 618, 675, 747
Bsp1720I GCTNAGC 1 cut(s) 845
Bsp68I TCGCGA 1 cut(s) 521
BspACI CCGC 3 cut(s) 220, 741, 758
BspANI GGCC 3 cut(s) 219, 785, 803
BspCNI CTCAG 1 cut(s) 837
BspFNI CGCG 1 cut(s) 521
BspMAI CTGCAG 1 cut(s) 33
BspPI GGATC 2 cut(s) 613, 683
BspQI GCTCTTC 1 cut(s) 158
BspTI CTTAAG 1 cut(s) 458
BspTNI GGTCTC 1 cut(s) 359
BsrFI RCCGGY 4 cut(s) 52, 178, 785, 803
BsrGI TGTACA 1 cut(s) 297
BsrI ACTGG 3 cut(s) 346, 631, 771
BssAI RCCGGY 4 cut(s) 52, 178, 785, 803
BssECI CCNNGG 4 cut(s) 211, 250, 390, 438
BssMI GATC 7 cut(s) 118, 421, 427, 588, 618, 675, 747
BssNAI GTATAC 1 cut(s) 503
BssNI GRCGYC 2 cut(s) 144, 280
BssSI CACGAG 1 cut(s) 777
BssT1I CCWWGG 1 cut(s) 211
Bst1107I GTATAC 1 cut(s) 503
Bst2BI CACGAG 1 cut(s) 777
Bst2UI CCWGG 4 cut(s) 141, 252, 391, 800
Bst6I CTCTTC 2 cut(s) 135, 158
BstACI GRCGYC 2 cut(s) 144, 280
BstAFI CTTAAG 1 cut(s) 458
BstAPI GCANNNNNTGC 1 cut(s) 637
BstAUI TGTACA 1 cut(s) 297
BstC8I GCNNGC 4 cut(s) 6, 180, 787, 805
BstDEI CTNAG 2 cut(s) 830, 845
BstF5I GGATG 2 cut(s) 502, 517
BstFNI CGCG 1 cut(s) 521
BstKTI GATC 7 cut(s) 121, 424, 430, 591, 621, 678, 750
BstMAI GTCTC 2 cut(s) 287, 359
BstMBI GATC 7 cut(s) 118, 421, 427, 588, 618, 675, 747
BstMWI GCNNNNNNNGC 3 cut(s) 216, 637, 782
BstNI CCWGG 4 cut(s) 141, 252, 391, 800
BstSCI CCNGG 4 cut(s) 139, 250, 389, 798
BstSFI CTRYAG 2 cut(s) 29, 234
BstUI CGCG 1 cut(s) 521
BstX2I RGATCY 3 cut(s) 588, 618, 675
BstYI RGATCY 3 cut(s) 588, 618, 675
BstZ17I GTATAC 1 cut(s) 503
BsuRI GGCC 3 cut(s) 219, 785, 803
BtsCI GGATG 2 cut(s) 502, 517
BtsIMutI CAGTG 2 cut(s) 624, 731
BtuMI TCGCGA 1 cut(s) 521
Cac8I GCNNGC 4 cut(s) 6, 180, 787, 805
Cfr10I RCCGGY 4 cut(s) 52, 178, 785, 803
CseI GACGC 2 cut(s) 133, 269
Csp6I GTAC 5 cut(s) 18, 75, 85, 298, 658
CviAII CATG 6 cut(s) 24, 112, 116, 287, 573, 712
CviQI GTAC 5 cut(s) 18, 75, 85, 298, 658
DdeI CTNAG 2 cut(s) 830, 845
DpnI GATC 7 cut(s) 120, 423, 429, 590, 620, 677, 749
DpnII GATC 7 cut(s) 118, 421, 427, 588, 618, 675, 747
EaeI YGGCCR 2 cut(s) 217, 783
Eam1104I CTCTTC 2 cut(s) 135, 158
EarI CTCTTC 2 cut(s) 135, 158
EciI GGCGGA 1 cut(s) 773
Ecl136II GAGCTC 1 cut(s) 849
Eco130I CCWWGG 1 cut(s) 211
Eco24I GRGCYC 1 cut(s) 851
Eco31I GGTCTC 1 cut(s) 359
Eco53kI GAGCTC 1 cut(s) 849
EcoICRI GAGCTC 1 cut(s) 849
EcoRI GAATTC 1 cut(s) 245
EcoRII CCWGG 4 cut(s) 139, 250, 389, 798
EcoT14I CCWWGG 1 cut(s) 211
EcoT22I ATGCAT 1 cut(s) 117
EcoT38I GRGCYC 1 cut(s) 851
ErhI CCWWGG 1 cut(s) 211
Esp3I CGTCTC 1 cut(s) 287
FaeI CATG 6 cut(s) 27, 115, 119, 290, 576, 715
FatI CATG 6 cut(s) 23, 111, 115, 286, 572, 711
FbaI TGATCA 2 cut(s) 118, 747
FblI GTMKAC 1 cut(s) 502
Fnu4HI GCNGC 1 cut(s) 220
FokI GGATG 2 cut(s) 509, 524
FriOI GRGCYC 1 cut(s) 851
Fsp4HI GCNGC 1 cut(s) 220
GluI GCNGC 1 cut(s) 220
GsuI CTGGAG 1 cut(s) 502
HaeIII GGCC 3 cut(s) 219, 785, 803
HapII CCGG 5 cut(s) 53, 155, 179, 786, 804
HgaI GACGC 2 cut(s) 133, 269
Hin1I GRCGYC 2 cut(s) 144, 280
Hin1II CATG 6 cut(s) 27, 115, 119, 290, 576, 715
HincII GTYRAC 2 cut(s) 570, 822
HindII GTYRAC 2 cut(s) 570, 822
HindIII AAGCTT 1 cut(s) 832
HinfI GANTC 2 cut(s) 443, 793
HpaII CCGG 5 cut(s) 53, 155, 179, 786, 804
HphI GGTGA 3 cut(s) 365, 604, 788
Hpy166II GTNNAC 5 cut(s) 20, 328, 503, 570, 822
Hpy188I TCNGA 4 cut(s) 511, 598, 729, 811
Hpy188III TCNNGA 6 cut(s) 122, 425, 481, 520, 533, 586
Hpy8I GTNNAC 5 cut(s) 20, 328, 503, 570, 822
HpyAV CCTTC 5 cut(s) 8, 116, 380, 516, 658
HpyCH4IV ACGT 1 cut(s) 324
HpyCH4V TGCA 4 cut(s) 4, 31, 115, 365
HpyF10VI GCNNNNNNNGC 3 cut(s) 216, 637, 782
HpyF3I CTNAG 2 cut(s) 830, 845
HpySE526I ACGT 1 cut(s) 324
Hsp92I GRCGYC 2 cut(s) 144, 280
Hsp92II CATG 6 cut(s) 27, 115, 119, 290, 576, 715
KroI GCCGGC 3 cut(s) 178, 785, 803
KroNI GCCGGC 3 cut(s) 180, 787, 805
Ksp22I TGATCA 2 cut(s) 118, 747
Kzo9I GATC 7 cut(s) 118, 421, 427, 588, 618, 675, 747
LguI GCTCTTC 1 cut(s) 158
MaeII ACGT 1 cut(s) 324
MaeIII GTNAC 2 cut(s) 453, 794
MalI GATC 7 cut(s) 120, 423, 429, 590, 620, 677, 749
MboI GATC 7 cut(s) 118, 421, 427, 588, 618, 675, 747
MboII GAAGA 4 cut(s) 122, 175, 328, 331
MfeI CAATTG 1 cut(s) 96
MflI RGATCY 3 cut(s) 588, 618, 675
MhlI GDGCHC 1 cut(s) 851
MluCI AATT 7 cut(s) 96, 169, 204, 245, 258, 400, 447
MlyI GAGTC 2 cut(s) 437, 802
MmeI TCCRAC 1 cut(s) 752
MnlI CCTC 7 cut(s) 54, 138, 303, 433, 487, 632, 646
Mph1103I ATGCAT 1 cut(s) 117
MroNI GCCGGC 3 cut(s) 178, 785, 803
MseI TTAA 1 cut(s) 459
MspA1I CMGCKG 1 cut(s) 222
MspCI CTTAAG 1 cut(s) 458
MspI CCGG 5 cut(s) 53, 155, 179, 786, 804
MspR9I CCNGG 4 cut(s) 141, 252, 391, 800
MunI CAATTG 1 cut(s) 96
MvaI CCWGG 4 cut(s) 141, 252, 391, 800
MvnI CGCG 1 cut(s) 521
MwoI GCNNNNNNNGC 3 cut(s) 216, 637, 782
NaeI GCCGGC 3 cut(s) 180, 787, 805
NdeII GATC 7 cut(s) 118, 421, 427, 588, 618, 675, 747
NgoMIV GCCGGC 3 cut(s) 178, 785, 803
NlaIII CATG 6 cut(s) 27, 115, 119, 290, 576, 715
NmeAIII GCCGAG 1 cut(s) 463
NmuCI GTSAC 1 cut(s) 794
NruI TCGCGA 1 cut(s) 521
NsiI ATGCAT 1 cut(s) 117
PciSI GCTCTTC 1 cut(s) 158
PdiI GCCGGC 3 cut(s) 180, 787, 805
PkrI GCNGC 1 cut(s) 221
PleI GAGTC 2 cut(s) 437, 801
PpsI GAGTC 2 cut(s) 437, 801
Psp124BI GAGCTC 1 cut(s) 851
Psp6I CCWGG 4 cut(s) 139, 250, 389, 798
PspGI CCWGG 4 cut(s) 139, 250, 389, 798
PstI CTGCAG 1 cut(s) 33
PsuI RGATCY 3 cut(s) 588, 618, 675
RruI TCGCGA 1 cut(s) 521
RsaI GTAC 5 cut(s) 19, 76, 86, 299, 659
RsaNI GTAC 5 cut(s) 18, 75, 85, 298, 658
SacI GAGCTC 1 cut(s) 851
SapI GCTCTTC 1 cut(s) 158
SaqAI TTAA 1 cut(s) 459
SatI GCNGC 1 cut(s) 220
Sau3AI GATC 7 cut(s) 118, 421, 427, 588, 618, 675, 747
ScaI AGTACT 1 cut(s) 86
SchI GAGTC 2 cut(s) 437, 802
ScrFI CCNGG 4 cut(s) 141, 252, 391, 800
SduI GDGCHC 1 cut(s) 851
SfcI CTRYAG 2 cut(s) 29, 234
SmlI CTYRAG 1 cut(s) 458
SmoI CTYRAG 1 cut(s) 458
Sse9I AATT 7 cut(s) 96, 169, 204, 245, 258, 400, 447
SsiI CCGC 3 cut(s) 220, 741, 758
SstI GAGCTC 1 cut(s) 851
StyD4I CCNGG 4 cut(s) 139, 250, 389, 798
StyI CCWWGG 1 cut(s) 211
TaiI ACGT 1 cut(s) 327
TaqI TCGA 1 cut(s) 12
TasI AATT 7 cut(s) 96, 169, 204, 245, 258, 400, 447
TatI WGTACW 3 cut(s) 84, 297, 657
TauI GCSGC 1 cut(s) 222
Tru1I TTAA 1 cut(s) 459
Tru9I TTAA 1 cut(s) 459
TscAI CASTG 2 cut(s) 631, 738
TseFI GTSAC 1 cut(s) 794
Tsp45I GTSAC 1 cut(s) 794
TspDTI ATGAA 3 cut(s) 329, 731, 826
TspRI CASTG 2 cut(s) 631, 738
Vha464I CTTAAG 1 cut(s) 458
XapI RAATTY 1 cut(s) 245
XmiI GTMKAC 1 cut(s) 502
ZrmI AGTACT 1 cut(s) 86
Zsp2I ATGCAT 1 cut(s) 117
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.