Rorug05G0374900

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0000224
Physical Location & Seq
Reverse (-)
50561754 .. 50567187
5434 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0374900.1

Sequence Viewer

Length: 1032 bp
ATGCAGCCAAAGTCTGATACTGAAAACCGAATACCTGCTGATCGTCATTCCATTCCACCATCCACTGTTTCTTCAGAACCTTGGTGGCGTACTGTTGGGTATAACCCCACCTCCCCAGCCGTGGCAGGGATAAATGCATCCAATTCATCTTCTTTTGAACGCCCAAAGAGTCGTTCAGAATCCAGTGATGACAAATCTGTTTCTGATGATGGATCAAATGAGGATGATGATAATGCCACCAAAAAGTCACAAATGACATCTCCTCAGTCAGTTGGAAATAAAAACCAGGATTTGCAGCTTGTTTCGTCCACTGTTCCTACAGTGCATGATGAAGGCGTTGCTCAGCCACCACAGCTTGAACTTATTGGTCACTCTATTGCTTGTGCCTCAAATCCTTACCAGGATCCATATTATGCAGGAATGATGGCGGCTTATGGACATCAGCCTTTGGGTTATCCTCCTTTTGTTGGAGTGCCACATGCTAGAATGCCTTTGCCTCTTGAGATGGCACAGGAGCCTGTATATGTCAATGCAAAACAATACCAAGGGATTCTACGGCGAAGACAGGCACGTGCAAAAGCAGAACTTGAAAAGAAGCTAATTAAAGTCAGAAAGCCATATCTTCATGAATCACGACATCAACATGCTATGAGAAGGGCAAGAGGTACTGGAGGACGTTTTGCAAGGAAAACAAATGGTGATACTTCAAAGACCACCGGCCAAGAAAAGGCATCAATTTCTGGTCCAGCCCATTCATCACAGTCTGCCAGTTCATCAGGCTCAGAACCCTTACCCTCAGATTCTGCAGAAACATGTAGTCAACCGGAAGCTAGTCGACCCCAAGTACATGATGCATATGCCACTAACAATTATGTAAATGGTAGTGGCTGCTACCAGACTCATGGTGGCTTGCAGGCTTCATTGTATCGTTCGTACTCGGGAAAAAGAAGGGACGAAGGAGACTGTACAGGCCAGCAACGGGGAAGTATGTCTTCAAATCAGGGTTCACAGAGGCGTCTTGCCATCCAGTGA
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 Transposase_24

Protein Analysis

343

Amino Acids

37.29

Weight (kDa)

9.03

Isoelectric Point (pI)

61.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 172 - 227 3.8e-27 CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B
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: OG0000224)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g08145 FvH4_4g05492 FvH4_4g15892
pyrus_communis pycom07g09690 pycom16g18380
rosa_chinensis RchiOBHm_Chr0c17g0499961 RchiOBHm_Chr1g0345631 RchiOBHm_Chr1g0345641 RchiOBHm_Chr1g0381191 RchiOBHm_Chr2g0102381 RchiOBHm_Chr2g0106131 RchiOBHm_Chr2g0148461 RchiOBHm_Chr2g0148471 RchiOBHm_Chr2g0157121 RchiOBHm_Chr3g0476041 RchiOBHm_Chr3g0476051 RchiOBHm_Chr3g0486961 RchiOBHm_Chr3g0487551 RchiOBHm_Chr4g0385011 RchiOBHm_Chr4g0410891 RchiOBHm_Chr4g0415291 RchiOBHm_Chr4g0427801 RchiOBHm_Chr4g0427811 RchiOBHm_Chr5g0001961 RchiOBHm_Chr5g0009841 RchiOBHm_Chr5g0025231 RchiOBHm_Chr6g0272461 RchiOBHm_Chr7g0199391 RchiOBHm_Chr7g0214031
rosa_laevigata RLG00000000706 RLG00000000749 RLG00000000750 RLG00000001166 RLG00000001748 RLG00000008952 RLG00000009088 RLG00000009090 RLG00000009094 RLG00000015391 RLG00000016519 RLG00000016520 RLG00000017174 RLG00000018887 RLG00000023058 RLG00000023059 RLG00000028282 RLG00000028531 RLG00000030444 RLG00000034592 RLG00000036555
rosa_multiflora Rmu_sc0000045.1_g000015 Rmu_sc0000157.1_g000011 Rmu_sc0000493.1_g000080 Rmu_sc0001307.1_g000027 Rmu_sc0001470.1_g000010 Rmu_sc0002277.1_g000022 Rmu_sc0002365.1_g000027 Rmu_sc0002693.1_g000008 Rmu_sc0002833.1_g000051 Rmu_sc0003275.1_g000066 Rmu_sc0003286.1_g000008 Rmu_sc0004234.1_g000035 Rmu_sc0004546.1_g000001 Rmu_sc0005058.1_g000004 Rmu_sc0007025.1_g000015 Rmu_sc0008144.1_g000006 Rmu_sc0008688.1_g000001 Rmu_sc0009185.1_g000010 Rmu_sc0020638.1_g000001
rosa_roxburghii Rroxscaffold_158G00443750 Rroxscaffold_1G00001770 Rroxscaffold_1G00002620 Rroxscaffold_1G00024490 Rroxscaffold_1G00035180 Rroxscaffold_1G00035190 Rroxscaffold_1G00061370 Rroxscaffold_1G00075590 Rroxscaffold_2G00110960 Rroxscaffold_2G00121340 Rroxscaffold_2G00128850 Rroxscaffold_2G00142580 Rroxscaffold_2G00142590 Rroxscaffold_3G00223630 Rroxscaffold_3G00263220 Rroxscaffold_4G00310820 Rroxscaffold_5G00336270 Rroxscaffold_5G00336280 Rroxscaffold_5G00336320 Rroxscaffold_5G00349820 Rroxscaffold_6G00395720 Rroxscaffold_6G00395910 Rroxscaffold_6G00415660 Rroxscaffold_7G00179770 Rroxscaffold_7G00184390 Rroxscaffold_7G00189270 Rroxscaffold_7G00197240 Rroxscaffold_8G00436850 Rroxscaffold_8G00436860 Rroxscaffold_8G00436880
rosa_rugosa Rorug01G0118400 Rorug02G0048900 Rorug02G0185600 Rorug02G0222600 Rorug03G0152800 Rorug04G0047600 Rorug04G0446400 Rorug05G0118900 Rorug05G0359700 Rorug05G0374800 Rorug05G0374900 Rorug05G0375000 Rorug05G0375100 Rorug05G0418900 Rorug05G0540000 Rorug05G0540000 Rorug05G0540100 Rorug06G0358700 Rorug06G0358700 Rorug06G0408700 Rorug06G0408700 Rorug06G0408800 Rorug06G0408900 Rorug07G0203000
rosa_samantha Rh1CG190700 Rh1CG196300 Rh2BG566600 Rh2CG188900 Rh3AG090900 Rh3AG278200 Rh3BG233900 Rh3CG094300 Rh4BG202100 Rh5BG543100 Rh5CG566000 Rh5DG397500 Rh7CG432800
rosa_wichuraiana Rw0G017850 Rw1G010340 Rw1G016290 Rw2G018520 Rw3G008970 Rw5G028090 Rw5G043930 Rw6G014660 Rw6G030340 Rw7G038240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 43
AccI GTMKAC 1 cut(s) 835
AciI CCGC 1 cut(s) 428
AclWI GGATC 3 cut(s) 220, 398, 411
AcoI YGGCCR 1 cut(s) 718
AcuI CTGAAG 1 cut(s) 57
AcvI CACGTG 1 cut(s) 572
AcyI GRCGYC 1 cut(s) 1015
AfaI GTAC 5 cut(s) 91, 667, 846, 935, 967
AfiI CCNNNNNNNGG 5 cut(s) 121, 126, 467, 727, 979
AflIII ACRYGT 1 cut(s) 812
AgsI TTSAA 5 cut(s) 158, 359, 590, 708, 996
AjnI CCWGG 2 cut(s) 285, 399
AjuI GAANNNNNNNTTGG 2 cut(s) 157, 189
AluBI AGCT 4 cut(s) 298, 355, 598, 830
AluI AGCT 4 cut(s) 298, 355, 598, 830
Alw26I GTCTC 1 cut(s) 954
AlwI GGATC 3 cut(s) 220, 398, 411
AlwNI CAGNNNCTG 1 cut(s) 803
Ama87I CYCGRG 1 cut(s) 937
AoxI GGCC 2 cut(s) 718, 970
ApeKI GCWGC 3 cut(s) 4, 295, 888
AspS9I GGNCC 1 cut(s) 743
AsuHPI GGTGA 1 cut(s) 710
AvaI CYCGRG 1 cut(s) 937
AvaII GGWCC 1 cut(s) 743
BamHI GGATCC 1 cut(s) 403
BbrPI CACGTG 1 cut(s) 572
BbsI GAAGAC 2 cut(s) 568, 984
BbvI GCAGC 3 cut(s) 16, 307, 875
BccI CCATC 5 cut(s) 67, 203, 418, 499, 1031
BceAI ACGGC 2 cut(s) 104, 572
BciT130I CCWGG 2 cut(s) 287, 401
BcoDI GTCTC 1 cut(s) 954
BfaI CTAG 2 cut(s) 483, 831
BfmI CTRYAG 2 cut(s) 318, 804
BfuAI ACCTGC 1 cut(s) 43
BisI GCNGC 4 cut(s) 5, 296, 429, 889
BlpI GCTNAGC 1 cut(s) 342
BlsI GCNGC 4 cut(s) 6, 297, 430, 890
Bme1390I CCNGG 2 cut(s) 287, 401
Bme18I GGWCC 1 cut(s) 743
BmeT110I CYCGRG 1 cut(s) 937
BmgT120I GGNCC 1 cut(s) 743
BmiI GGNNCC 2 cut(s) 405, 516
BmrFI CCNGG 2 cut(s) 287, 401
BmsI GCATC 3 cut(s) 146, 740, 841
BpiI GAAGAC 2 cut(s) 568, 984
BpmI CTGGAG 1 cut(s) 690
Bpu1102I GCTNAGC 1 cut(s) 342
BpuEI CTTGAG 1 cut(s) 521
BsaAI YACGTR 1 cut(s) 572
BsaHI GRCGYC 1 cut(s) 1015
BsaJI CCNNGG 3 cut(s) 80, 120, 544
BsaWI WCCGGW 1 cut(s) 823
BsaXI ACNNNNNCTCC 2 cut(s) 95, 125
Bsc4I CCNNNNNNNGG 5 cut(s) 121, 126, 467, 727, 979
Bse118I RCCGGY 1 cut(s) 716
Bse1I ACTGG 4 cut(s) 183, 673, 768, 1027
BseBI CCWGG 2 cut(s) 287, 401
BseDI CCNNGG 3 cut(s) 80, 120, 544
BseGI GGATG 4 cut(s) 59, 137, 229, 1023
BseLI CCNNNNNNNGG 5 cut(s) 121, 126, 467, 727, 979
BseMII CTCAG 4 cut(s) 278, 356, 795, 810
BseNI ACTGG 4 cut(s) 183, 673, 768, 1027
BseRI GAGGAG 1 cut(s) 252
BseXI GCAGC 3 cut(s) 16, 307, 875
BseYI CCCAGC 1 cut(s) 115
BshFI GGCC 2 cut(s) 720, 972
BsiHKCI CYCGRG 1 cut(s) 937
BsiSI CCGG 2 cut(s) 717, 824
BslFI GGGAC 1 cut(s) 965
BslI CCNNNNNNNGG 5 cut(s) 121, 126, 467, 727, 979
BsmAI GTCTC 1 cut(s) 954
BsmFI GGGAC 1 cut(s) 965
BsmI GAATGC 1 cut(s) 492
BsnI GGCC 2 cut(s) 720, 972
BsoBI CYCGRG 1 cut(s) 937
Bsp1407I TGTACA 1 cut(s) 965
Bsp143I GATC 3 cut(s) 40, 212, 403
Bsp1720I GCTNAGC 1 cut(s) 342
BspACI CCGC 1 cut(s) 428
BspANI GGCC 2 cut(s) 720, 972
BspCNI CTCAG 4 cut(s) 277, 355, 794, 809
BspHI TCATGA 1 cut(s) 625
BspLI GGNNCC 2 cut(s) 405, 516
BspMAI CTGCAG 1 cut(s) 808
BspMI ACCTGC 1 cut(s) 43
BspPI GGATC 3 cut(s) 220, 398, 411
BsrFI RCCGGY 1 cut(s) 716
BsrGI TGTACA 1 cut(s) 965
BsrI ACTGG 4 cut(s) 183, 673, 768, 1027
BssAI RCCGGY 1 cut(s) 716
BssECI CCNNGG 3 cut(s) 80, 120, 544
BssMI GATC 3 cut(s) 40, 212, 403
BssNI GRCGYC 1 cut(s) 1015
BssT1I CCWWGG 2 cut(s) 80, 544
Bst2UI CCWGG 2 cut(s) 287, 401
Bst4CI ACNGT 6 cut(s) 67, 94, 313, 322, 762, 965
BstACI GRCGYC 1 cut(s) 1015
BstAUI TGTACA 1 cut(s) 965
BstBAI YACGTR 1 cut(s) 572
BstC8I GCNNGC 3 cut(s) 911, 915, 974
BstDEI CTNAG 4 cut(s) 264, 342, 781, 796
BstDSI CCRYGG 1 cut(s) 120
BstF5I GGATG 4 cut(s) 59, 137, 229, 1023
BstKTI GATC 3 cut(s) 43, 215, 406
BstMAI GTCTC 1 cut(s) 954
BstMBI GATC 3 cut(s) 40, 212, 403
BstMWI GCNNNNNNNGC 1 cut(s) 352
BstNI CCWGG 2 cut(s) 287, 401
BstNSI RCATGY 3 cut(s) 482, 647, 816
BstSCI CCNGG 2 cut(s) 285, 399
BstSFI CTRYAG 2 cut(s) 318, 804
BstV1I GCAGC 3 cut(s) 16, 307, 875
BstV2I GAAGAC 2 cut(s) 568, 984
BstX2I RGATCY 1 cut(s) 403
BstXI CCANNNNNNTGG 1 cut(s) 902
BstYI RGATCY 1 cut(s) 403
BsuRI GGCC 2 cut(s) 720, 972
BtgI CCRYGG 1 cut(s) 120
BtsCI GGATG 4 cut(s) 59, 137, 229, 1023
BtsIMutI CAGTG 4 cut(s) 63, 190, 309, 327
BveI ACCTGC 1 cut(s) 43
Cac8I GCNNGC 3 cut(s) 911, 915, 974
CaiI CAGNNNCTG 1 cut(s) 803
CciI TCATGA 1 cut(s) 625
Cfr10I RCCGGY 1 cut(s) 716
Cfr13I GGNCC 1 cut(s) 743
CseI GACGC 1 cut(s) 1004
Csp6I GTAC 5 cut(s) 90, 666, 845, 934, 966
CviAII CATG 7 cut(s) 326, 479, 626, 644, 813, 848, 902
CviQI GTAC 5 cut(s) 90, 666, 845, 934, 966
DdeI CTNAG 4 cut(s) 264, 342, 781, 796
DpnI GATC 3 cut(s) 42, 214, 405
DpnII GATC 3 cut(s) 40, 212, 403
EaeI YGGCCR 1 cut(s) 718
Eco130I CCWWGG 2 cut(s) 80, 544
Eco47I GGWCC 1 cut(s) 743
Eco57I CTGAAG 1 cut(s) 57
Eco72I CACGTG 1 cut(s) 572
Eco88I CYCGRG 1 cut(s) 937
EcoRII CCWGG 2 cut(s) 285, 399
EcoT14I CCWWGG 2 cut(s) 80, 544
EcoT22I ATGCAT 2 cut(s) 139, 856
ErhI CCWWGG 2 cut(s) 80, 544
FaeI CATG 7 cut(s) 329, 482, 629, 647, 816, 851, 905
FalI AAGNNNNNCTT 4 cut(s) 570, 602, 976, 1008
FaqI GGGAC 1 cut(s) 965
FatI CATG 7 cut(s) 325, 478, 625, 643, 812, 847, 901
FauNDI CATATG 1 cut(s) 856
FblI GTMKAC 1 cut(s) 835
Fnu4HI GCNGC 4 cut(s) 5, 296, 429, 889
FokI GGATG 4 cut(s) 46, 124, 236, 1010
Fsp4HI GCNGC 4 cut(s) 5, 296, 429, 889
FspBI CTAG 2 cut(s) 483, 831
GluI GCNGC 4 cut(s) 5, 296, 429, 889
GsaI CCCAGC 1 cut(s) 119
GsuI CTGGAG 1 cut(s) 690
HaeIII GGCC 2 cut(s) 720, 972
HapII CCGG 2 cut(s) 717, 824
HgaI GACGC 1 cut(s) 1004
Hin1I GRCGYC 1 cut(s) 1015
Hin1II CATG 7 cut(s) 329, 482, 629, 647, 816, 851, 905
HincII GTYRAC 2 cut(s) 821, 836
HindII GTYRAC 2 cut(s) 821, 836
HinfI GANTC 6 cut(s) 169, 179, 550, 629, 800, 898
HpaII CCGG 2 cut(s) 717, 824
HphI GGTGA 1 cut(s) 710
Hpy166II GTNNAC 4 cut(s) 309, 821, 836, 1007
Hpy188I TCNGA 7 cut(s) 16, 76, 178, 205, 611, 784, 799
Hpy188III TCNNGA 4 cut(s) 500, 626, 633, 939
Hpy8I GTNNAC 4 cut(s) 309, 821, 836, 1007
HpyAV CCTTC 4 cut(s) 326, 648, 942, 950
HpyCH4III ACNGT 6 cut(s) 67, 94, 313, 322, 762, 965
HpyCH4IV ACGT 2 cut(s) 571, 676
HpyF10VI GCNNNNNNNGC 1 cut(s) 352
HpyF3I CTNAG 4 cut(s) 264, 342, 781, 796
HpySE526I ACGT 2 cut(s) 571, 676
Hsp92I GRCGYC 1 cut(s) 1015
Hsp92II CATG 7 cut(s) 329, 482, 629, 647, 816, 851, 905
Kzo9I GATC 3 cut(s) 40, 212, 403
LmnI GCTCC 1 cut(s) 514
Lsp1109I GCAGC 3 cut(s) 16, 307, 875
LweI GCATC 3 cut(s) 146, 740, 841
MaeI CTAG 2 cut(s) 483, 831
MaeII ACGT 2 cut(s) 571, 676
MaeIII GTNAC 2 cut(s) 246, 368
MalI GATC 3 cut(s) 42, 214, 405
MboI GATC 3 cut(s) 40, 212, 403
MboII GAAGA 5 cut(s) 63, 141, 573, 614, 984
MflI RGATCY 1 cut(s) 403
MluCI AATT 4 cut(s) 142, 600, 735, 868
MlyI GAGTC 2 cut(s) 178, 892
MmeI TCCRAC 2 cut(s) 253, 448
Mph1103I ATGCAT 2 cut(s) 139, 856
MseI TTAA 1 cut(s) 603
MslI CAYNNNNRTG 1 cut(s) 642
MspI CCGG 2 cut(s) 717, 824
MspR9I CCNGG 2 cut(s) 287, 401
Mva1269I GAATGC 1 cut(s) 492
MvaI CCWGG 2 cut(s) 287, 401
MwoI GCNNNNNNNGC 1 cut(s) 352
NdeI CATATG 1 cut(s) 856
NdeII GATC 3 cut(s) 40, 212, 403
NlaIII CATG 7 cut(s) 329, 482, 629, 647, 816, 851, 905
NlaIV GGNNCC 2 cut(s) 405, 516
NmuCI GTSAC 2 cut(s) 246, 368
NsiI ATGCAT 2 cut(s) 139, 856
NspI RCATGY 3 cut(s) 482, 647, 816
PagI TCATGA 1 cut(s) 625
PciI ACATGT 1 cut(s) 812
PctI GAATGC 1 cut(s) 492
PfeI GAWTC 4 cut(s) 179, 550, 629, 800
PkrI GCNGC 4 cut(s) 6, 297, 430, 890
PleI GAGTC 2 cut(s) 177, 892
PmaCI CACGTG 1 cut(s) 572
PmlI CACGTG 1 cut(s) 572
PpsI GAGTC 2 cut(s) 177, 892
Ppu21I YACGTR 1 cut(s) 572
PscI ACATGT 1 cut(s) 812
Psp6I CCWGG 2 cut(s) 285, 399
PspCI CACGTG 1 cut(s) 572
PspFI CCCAGC 1 cut(s) 115
PspGI CCWGG 2 cut(s) 285, 399
PspN4I GGNNCC 2 cut(s) 405, 516
PspPI GGNCC 1 cut(s) 743
PstI CTGCAG 1 cut(s) 808
PstNI CAGNNNCTG 1 cut(s) 803
PsuI RGATCY 1 cut(s) 403
RsaI GTAC 5 cut(s) 91, 667, 846, 935, 967
RsaNI GTAC 5 cut(s) 90, 666, 845, 934, 966
RseI CAYNNNNRTG 1 cut(s) 642
SalI GTCGAC 1 cut(s) 834
SaqAI TTAA 1 cut(s) 603
SatI GCNGC 4 cut(s) 5, 296, 429, 889
Sau3AI GATC 3 cut(s) 40, 212, 403
Sau96I GGNCC 1 cut(s) 743
SchI GAGTC 2 cut(s) 178, 892
ScrFI CCNGG 2 cut(s) 287, 401
SfaNI GCATC 3 cut(s) 146, 740, 841
SfcI CTRYAG 2 cut(s) 318, 804
SinI GGWCC 1 cut(s) 743
SmiMI CAYNNNNRTG 1 cut(s) 642
SmlI CTYRAG 1 cut(s) 500
SmoI CTYRAG 1 cut(s) 500
Sse9I AATT 4 cut(s) 142, 600, 735, 868
SsiI CCGC 1 cut(s) 428
SspMI CTAG 2 cut(s) 483, 831
StyD4I CCNGG 2 cut(s) 285, 399
StyI CCWWGG 2 cut(s) 80, 544
TaaI ACNGT 6 cut(s) 67, 94, 313, 322, 762, 965
TaiI ACGT 2 cut(s) 574, 679
TaqI TCGA 1 cut(s) 835
TasI AATT 4 cut(s) 142, 600, 735, 868
TatI WGTACW 2 cut(s) 844, 965
TauI GCSGC 1 cut(s) 431
TfiI GAWTC 4 cut(s) 179, 550, 629, 800
Tru1I TTAA 1 cut(s) 603
Tru9I TTAA 1 cut(s) 603
TscAI CASTG 4 cut(s) 70, 190, 316, 327
TseFI GTSAC 2 cut(s) 246, 368
TseI GCWGC 3 cut(s) 4, 295, 888
Tsp45I GTSAC 2 cut(s) 246, 368
TspDTI ATGAA 7 cut(s) 135, 345, 614, 642, 744, 762, 909
TspRI CASTG 4 cut(s) 70, 190, 316, 327
VpaK11BI GGWCC 1 cut(s) 743
XceI RCATGY 3 cut(s) 482, 647, 816
XcmI CCANNNNNNNNNTGG 1 cut(s) 902
XmiI GTMKAC 1 cut(s) 835
XspI CTAG 2 cut(s) 483, 831
Zsp2I ATGCAT 2 cut(s) 139, 856
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.