Rh2BG549200

Ubiquitin fusion degradation protein UFD1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0011431
Physical Location & Seq
Forward (+)
75823131 .. 75825788
2658 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG549200.1

Sequence Viewer

Length: 1710 bp
ATGGATTACGAGCTGAGGAGAGCGAGAGAGAAGCTGAACAAGGAGCAGAACGAGAGGAAAGAGATGGCCAGGAAGAGATTGGAGAGGGAGAGAAAGGCCAAAGAAGAAGCCAGGAAGCAAAGAGAAGCCCTTGACGCTGAGAGATCCAGACGCATCTTCGATGCCGAACAAGCCCAGATTAAGGTTGATCAAGAAGTGCAGGAAAGTTTACTTGTGGGACGAGGAATTGTGTTTTATCGTGTGTTGGAAGCGGTAGCTTGTCAGGGTAGTGGAGATAAGATCAAGCTGCCATCGTCATGCTTCAATGAATTGTCGGAAGGAGGCGCTTTTGATAAGGGACCATTGTATTTCAAGTTATCGGTTGTTCATCAGGAGGGTTCTTCGGACATGGTTGATGAAAAGGAAAAGTGTCGGAGCACACATTCAGGTGTTTTGGAGTTCACAGCTGATGAAGGTTTTGTTGGGCTTCCTCCTCATGTATGGCAGAATTTATTTCCAGGGAATACACCAGCAATCCCTTTGATAGAAGTTCGCTATGTCTGGCTGCCTAAAGGAACTTACGCCAAACTCCAACCTCTTAGGGTAGGCTTCTCAGACTTGCCTAACCACAAGGCCATCCTCGAAACAAGCCTTCGCCAGCATGCCACCCTTTCTGAAGATGATATATTTATAGTCAACTATGGGGACCTGGTATATAAGTTGCAGGTTCTTGAATTAAAACCCTCTTTAAGTGTATCTGTTCTAGAAACAGATATTGAAGTCGACATAGTTGGTCCTGATGCCGCTGTGGAGAACACTCATGATAATGTCCTAAAACCACTTACATTTGGAAAATCGGAATTTGGAATGGTCGATGAAGGGCACTACACATATTACAAGTTCTCAATAGATAATGCTACTTGGGAGAACATTGCTTCTGGGGATGCCAAAGTTGAGGTCAGGATAGAACCAGAGACAAATTCTGGGGATAGTGATATCTACATATCTAAGCATCCTCTCATATTCCCTACCAGGCACCAGCATGAATGGTCATCCCATGACATTGGTTCGAAGACTTTGATCCTTAGTTCAAAAGATAAGAGCTTGGAGGCAGGAACTTACACTCTTGGTGTTTATGGCTTTAAGGGAAAAACTAAGTACCATGTATCTGTGAATGTTGAAGATGTTAGGAATCAGAAGGTAGGCCAGAAGGTTGCGTCTTCCTCATCGTCAATGGATGTGGATACTGTAGAGTGTAAGAATTGTAAGCGTTATATACCCAGTCGGAGTATTGCACTTCATGAAGCATATTGTAGCAGAAACAATGTTGTTTGTCGGCATACTGGTTGTGGAGTTGTTCTTAGGGTTGAGGAGGCCAAGAATCATGTGCATTGTCAAAAATGTGGACAGCCTTTTCATCAGGAAGAGATGGAGAAGCACATGAAAGTGTTCCATGAGCCGCTTCACTGCCCCTGTGGTATTGTGCTTGAGAAGGAAGAGATGGTGCAACATCAAGCCTCAGTTTGCCCCCTGCGCCTTGTTCCATGTCGATTCTGTGGGGACATGGTTCAAGCCGGAAGTTCTGCTATTGATGTTCGGGACAAGTTAAGAGGATTGTCTGAGCATGAGAGTGTCTGTGGGTCGAGGACTGCCCCGTGTGATTCATGTGGGCGTTCCGTGATGTTGAAGGACATGGACATCCACCGCGTTGCCGTCCATCAAAAGAACTAA

Protein Analysis

569

Amino Acids

64.14

Weight (kDa)

6.33

Isoelectric Point (pI)

38.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UFD1_N1 PF03152 89 - 183 3.2e-16 Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2 PF24842 184 - 259 3.9e-27 Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 2
Znf_XAF1_N PF23580 406 - 434 7.7e-15 XIAP-associated factor 1-like, N-terminal zinc finger
TRAFD1-XIAF1_ZnF PF21366 532 - 561 1.1e-09 TRAFD1/XAF1, zinc finger
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0011431)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G15420 AT4G15420
fragaria_vesca FvH4_6g42660
malus_domestica MD09G1071000.v1.1 MD17G1101600.v1.1
prunus_persica Prupe.3G213300_v2.0.a1
pyrus_communis pycom09g03500 pycom17g09600
rosa_chinensis RchiOBHm_Chr2g0158561
rosa_laevigata RLG00000021095
rosa_multiflora Rmu_sc0017496.1_g000003 Rmu_sc0040507.1_g000001 Rmu_sc0040508.1_g000001
rosa_roxburghii Rroxscaffold_2G00091220
rosa_rugosa Rorug02G0469900
rosa_samantha Rh2AG536100 Rh2BG549200 Rh2CG519700 Rh2DG558900
rosa_wichuraiana Rw2G044380

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 694
AccB1I GGYRCC 1 cut(s) 1014
AccI GTMKAC 1 cut(s) 762
AccII CGCG 1 cut(s) 1686
AciI CCGC 4 cut(s) 251, 783, 1439, 1684
AclWI GGATC 2 cut(s) 138, 1054
AcoI YGGCCR 1 cut(s) 66
AcsI RAATTY 3 cut(s) 487, 839, 958
AcuI CTGAAG 1 cut(s) 675
AfaI GTAC 1 cut(s) 1139
AfiI CCNNNNNNNGG 1 cut(s) 181
AgsI TTSAA 8 cut(s) 304, 352, 713, 758, 1071, 1160, 1550, 1666
AjnI CCWGG 5 cut(s) 68, 110, 496, 687, 1010
AjuI GAANNNNNNNTTGG 2 cut(s) 444, 476
AluBI AGCT 6 cut(s) 13, 34, 257, 286, 446, 1083
AluI AGCT 6 cut(s) 13, 34, 257, 286, 446, 1083
Alw21I GWGCWC 1 cut(s) 419
Alw26I GTCTC 1 cut(s) 947
AlwI GGATC 2 cut(s) 138, 1054
AoxI GGCC 5 cut(s) 66, 96, 612, 1183, 1353
ApeKI GCWGC 2 cut(s) 286, 544
ApoI RAATTY 3 cut(s) 487, 839, 958
ArsI GACNNNNNNTTYG 2 cut(s) 921, 953
Asp700I GAANNNNTTC 1 cut(s) 1427
AspLEI GCGC 2 cut(s) 326, 1515
AspS9I GGNCC 3 cut(s) 338, 685, 773
AsuII TTCGAA 1 cut(s) 1049
AvaII GGWCC 3 cut(s) 338, 685, 773
BaeGI GKGCMC 1 cut(s) 864
BalI TGGCCA 1 cut(s) 68
BanI GGYRCC 1 cut(s) 1014
BbsI GAAGAC 2 cut(s) 1058, 1191
Bbv12I GWGCWC 1 cut(s) 419
BbvCI CCTCAGC 1 cut(s) 14
BbvI GCAGC 2 cut(s) 273, 531
BccI CCATC 6 cut(s) 58, 298, 623, 1402, 1474, 1704
BceAI ACGGC 1 cut(s) 1676
BciT130I CCWGG 5 cut(s) 70, 112, 498, 689, 1012
BciVI GTATCC 1 cut(s) 1216
BclI TGATCA 1 cut(s) 187
BcoDI GTCTC 1 cut(s) 947
BfaI CTAG 1 cut(s) 743
BfmI CTRYAG 1 cut(s) 1227
BfoI RGCGCY 1 cut(s) 327
BfuAI ACCTGC 1 cut(s) 694
BfuI GTATCC 1 cut(s) 1216
BisI GCNGC 4 cut(s) 287, 545, 783, 1439
BlsI GCNGC 4 cut(s) 288, 546, 784, 1440
Bme1390I CCNGG 5 cut(s) 70, 112, 498, 689, 1012
Bme18I GGWCC 3 cut(s) 338, 685, 773
BmgT120I GGNCC 3 cut(s) 338, 685, 773
BmiI GGNNCC 3 cut(s) 339, 686, 1016
BmrFI CCNGG 5 cut(s) 70, 112, 498, 689, 1012
BmrI ACTGGG 1 cut(s) 1254
BmsI GCATC 5 cut(s) 151, 162, 769, 913, 1000
BmuI ACTGGG 1 cut(s) 1254
BpiI GAAGAC 2 cut(s) 1058, 1191
Bpu10I CCTNAGC 1 cut(s) 14
Bpu14I TTCGAA 1 cut(s) 1049
BpuEI CTTGAG 1 cut(s) 1487
BsaJI CCNNGG 1 cut(s) 497
Bsc4I CCNNNNNNNGG 1 cut(s) 181
Bse1I ACTGG 2 cut(s) 1260, 1327
Bse3DI GCAATG 1 cut(s) 909
BseBI CCWGG 5 cut(s) 70, 112, 498, 689, 1012
BseDI CCNNGG 1 cut(s) 497
BseGI GGATG 6 cut(s) 615, 928, 991, 1031, 1222, 1677
BseLI CCNNNNNNNGG 1 cut(s) 181
BseMI GCAATG 1 cut(s) 909
BseMII CTCAG 5 cut(s) 5, 129, 606, 1512, 1590
BseNI ACTGG 2 cut(s) 1260, 1327
BseRI GAGGAG 3 cut(s) 31, 462, 1364
BseSI GKGCMC 1 cut(s) 864
BseXI GCAGC 2 cut(s) 273, 531
BsgI GTGCAG 1 cut(s) 218
Bsh1236I CGCG 1 cut(s) 1686
BshFI GGCC 5 cut(s) 68, 98, 614, 1185, 1355
BshNI GGYRCC 1 cut(s) 1014
BsiHKAI GWGCWC 1 cut(s) 419
BsiSI CCGG 1 cut(s) 1554
BslFI GGGAC 5 cut(s) 231, 351, 698, 1553, 1592
BslI CCNNNNNNNGG 1 cut(s) 181
BsmAI GTCTC 1 cut(s) 947
BsmFI GGGAC 5 cut(s) 231, 351, 698, 1553, 1592
BsnI GGCC 5 cut(s) 68, 98, 614, 1185, 1355
Bsp119I TTCGAA 1 cut(s) 1049
Bsp1286I GDGCHC 2 cut(s) 419, 864
Bsp143I GATC 4 cut(s) 143, 187, 279, 1059
BspACI CCGC 4 cut(s) 251, 783, 1439, 1684
BspANI GGCC 5 cut(s) 68, 98, 614, 1185, 1355
BspCNI CTCAG 5 cut(s) 6, 130, 605, 1511, 1591
BspFNI CGCG 1 cut(s) 1686
BspHI TCATGA 2 cut(s) 799, 1279
BspLI GGNNCC 3 cut(s) 339, 686, 1016
BspMI ACCTGC 1 cut(s) 694
BspPI GGATC 2 cut(s) 138, 1054
BspT104I TTCGAA 1 cut(s) 1049
BspT107I GGYRCC 1 cut(s) 1014
BsrDI GCAATG 1 cut(s) 909
BsrI ACTGG 2 cut(s) 1260, 1327
BssECI CCNNGG 1 cut(s) 497
BssMI GATC 4 cut(s) 143, 187, 279, 1059
Bst2UI CCWGG 5 cut(s) 70, 112, 498, 689, 1012
Bst4CI ACNGT 1 cut(s) 1228
Bst6I CTCTTC 3 cut(s) 68, 1398, 1470
BstBI TTCGAA 1 cut(s) 1049
BstC8I GCNNGC 2 cut(s) 638, 642
BstF5I GGATG 6 cut(s) 615, 928, 991, 1031, 1222, 1677
BstFNI CGCG 1 cut(s) 1686
BstH2I RGCGCY 1 cut(s) 327
BstHHI GCGC 2 cut(s) 326, 1515
BstKTI GATC 4 cut(s) 146, 190, 282, 1062
BstMAI GTCTC 1 cut(s) 947
BstMBI GATC 4 cut(s) 143, 187, 279, 1059
BstMWI GCNNNNNNNGC 3 cut(s) 134, 170, 1512
BstNI CCWGG 5 cut(s) 70, 112, 498, 689, 1012
BstNSI RCATGY 1 cut(s) 644
BstSCI CCNGG 5 cut(s) 68, 110, 496, 687, 1010
BstSFI CTRYAG 1 cut(s) 1227
BstSLI GKGCMC 1 cut(s) 864
BstUI CGCG 1 cut(s) 1686
BstV1I GCAGC 2 cut(s) 273, 531
BstV2I GAAGAC 2 cut(s) 1058, 1191
BstX2I RGATCY 1 cut(s) 143
BstXI CCANNNNNNTGG 1 cut(s) 1043
BstYI RGATCY 1 cut(s) 143
BsuI GTATCC 1 cut(s) 1216
BsuRI GGCC 5 cut(s) 68, 98, 614, 1185, 1355
BtsCI GGATG 6 cut(s) 615, 928, 991, 1031, 1222, 1677
BtsI GCAGTG 1 cut(s) 1444
BtsIMutI CAGTG 1 cut(s) 1444
BveI ACCTGC 1 cut(s) 694
Cac8I GCNNGC 2 cut(s) 638, 642
CciI TCATGA 2 cut(s) 799, 1279
CfoI GCGC 2 cut(s) 326, 1515
Cfr13I GGNCC 3 cut(s) 338, 685, 773
CseI GACGC 3 cut(s) 143, 159, 1185
CsiI ACCWGGT 1 cut(s) 687
Csp6I GTAC 1 cut(s) 1138
CspCI CAANNNNNGTGG 2 cut(s) 1200, 1235
CviQI GTAC 1 cut(s) 1138
DpnI GATC 4 cut(s) 145, 189, 281, 1061
DpnII GATC 4 cut(s) 143, 187, 279, 1059
EaeI YGGCCR 1 cut(s) 66
Eam1104I CTCTTC 3 cut(s) 68, 1398, 1470
EarI CTCTTC 3 cut(s) 68, 1398, 1470
Eco32I GATATC 1 cut(s) 976
Eco47I GGWCC 3 cut(s) 338, 685, 773
Eco57I CTGAAG 1 cut(s) 675
EcoO109I RGGNCCY 1 cut(s) 685
EcoRII CCWGG 5 cut(s) 68, 110, 496, 687, 1010
EcoRV GATATC 1 cut(s) 976
FaqI GGGAC 5 cut(s) 231, 351, 698, 1553, 1592
FbaI TGATCA 1 cut(s) 187
FblI GTMKAC 1 cut(s) 762
Fnu4HI GCNGC 4 cut(s) 287, 545, 783, 1439
FokI GGATG 6 cut(s) 602, 935, 978, 1018, 1229, 1664
Fsp4HI GCNGC 4 cut(s) 287, 545, 783, 1439
FspBI CTAG 1 cut(s) 743
GlaI GCGC 2 cut(s) 325, 1514
GluI GCNGC 4 cut(s) 287, 545, 783, 1439
HaeII RGCGCY 1 cut(s) 327
HaeIII GGCC 5 cut(s) 68, 98, 614, 1185, 1355
HapII CCGG 1 cut(s) 1554
HgaI GACGC 3 cut(s) 143, 159, 1185
HhaI GCGC 2 cut(s) 326, 1515
Hin6I GCGC 2 cut(s) 324, 1513
HinP1I GCGC 2 cut(s) 324, 1513
HincII GTYRAC 2 cut(s) 676, 763
HindII GTYRAC 2 cut(s) 676, 763
HinfI GANTC 4 cut(s) 1171, 1360, 1530, 1640
HpaII CCGG 1 cut(s) 1554
Hpy166II GTNNAC 5 cut(s) 209, 441, 676, 763, 1385
Hpy188I TCNGA 9 cut(s) 316, 385, 414, 595, 655, 838, 1176, 1266, 1600
Hpy8I GTNNAC 5 cut(s) 209, 441, 676, 763, 1385
HpyAV CCTTC 8 cut(s) 311, 446, 641, 851, 1171, 1183, 1465, 1660
HpyCH4III ACNGT 1 cut(s) 1228
HpyCH4V TGCA 5 cut(s) 199, 703, 1274, 1369, 1486
HpyF10VI GCNNNNNNNGC 3 cut(s) 134, 170, 1512
HspAI GCGC 2 cut(s) 324, 1513
Ksp22I TGATCA 1 cut(s) 187
Kzo9I GATC 4 cut(s) 143, 187, 279, 1059
LmnI GCTCC 2 cut(s) 43, 414
Lsp1109I GCAGC 2 cut(s) 273, 531
LweI GCATC 5 cut(s) 151, 162, 769, 913, 1000
MabI ACCWGGT 1 cut(s) 687
MaeI CTAG 1 cut(s) 743
MalI GATC 4 cut(s) 145, 189, 281, 1061
MboI GATC 4 cut(s) 143, 187, 279, 1059
MflI RGATCY 1 cut(s) 143
MhlI GDGCHC 2 cut(s) 419, 864
MlsI TGGCCA 1 cut(s) 68
MluCI AATT 7 cut(s) 225, 308, 487, 713, 839, 958, 1240
MluNI TGGCCA 1 cut(s) 68
MmeI TCCRAC 5 cut(s) 225, 294, 392, 595, 1244
Mox20I TGGCCA 1 cut(s) 68
MroXI GAANNNNTTC 1 cut(s) 1427
MscI TGGCCA 1 cut(s) 68
MseI TTAA 5 cut(s) 180, 716, 728, 1122, 1586
MslI CAYNNNNRTG 6 cut(s) 295, 426, 804, 1020, 1424, 1608
Msp20I TGGCCA 1 cut(s) 68
MspA1I CMGCKG 2 cut(s) 446, 785
MspI CCGG 1 cut(s) 1554
MspR9I CCNGG 5 cut(s) 70, 112, 498, 689, 1012
MvaI CCWGG 5 cut(s) 70, 112, 498, 689, 1012
MvnI CGCG 1 cut(s) 1686
MwoI GCNNNNNNNGC 3 cut(s) 134, 170, 1512
NdeII GATC 4 cut(s) 143, 187, 279, 1059
NlaIV GGNNCC 3 cut(s) 339, 686, 1016
NspI RCATGY 1 cut(s) 644
NspV TTCGAA 1 cut(s) 1049
PaeI GCATGC 1 cut(s) 644
PagI TCATGA 2 cut(s) 799, 1279
PdmI GAANNNNTTC 1 cut(s) 1427
PfeI GAWTC 4 cut(s) 1171, 1360, 1530, 1640
PkrI GCNGC 4 cut(s) 288, 546, 784, 1440
PpuMI RGGWCCY 1 cut(s) 685
Psp5II RGGWCCY 1 cut(s) 685
Psp6I CCWGG 5 cut(s) 68, 110, 496, 687, 1010
PspGI CCWGG 5 cut(s) 68, 110, 496, 687, 1010
PspN4I GGNNCC 3 cut(s) 339, 686, 1016
PspPI GGNCC 3 cut(s) 338, 685, 773
PspPPI RGGWCCY 1 cut(s) 685
PsuI RGATCY 1 cut(s) 143
PvuII CAGCTG 1 cut(s) 446
RsaI GTAC 1 cut(s) 1139
RsaNI GTAC 1 cut(s) 1138
RseI CAYNNNNRTG 6 cut(s) 295, 426, 804, 1020, 1424, 1608
SalI GTCGAC 1 cut(s) 761
SaqAI TTAA 5 cut(s) 180, 716, 728, 1122, 1586
SatI GCNGC 4 cut(s) 287, 545, 783, 1439
Sau3AI GATC 4 cut(s) 143, 187, 279, 1059
Sau96I GGNCC 3 cut(s) 338, 685, 773
ScrFI CCNGG 5 cut(s) 70, 112, 498, 689, 1012
SduI GDGCHC 2 cut(s) 419, 864
SexAI ACCWGGT 1 cut(s) 687
SfaNI GCATC 5 cut(s) 151, 162, 769, 913, 1000
SfcI CTRYAG 1 cut(s) 1227
SfuI TTCGAA 1 cut(s) 1049
SinI GGWCC 3 cut(s) 338, 685, 773
SmiMI CAYNNNNRTG 6 cut(s) 295, 426, 804, 1020, 1424, 1608
SmlI CTYRAG 1 cut(s) 1466
SmoI CTYRAG 1 cut(s) 1466
SphI GCATGC 1 cut(s) 644
Sse9I AATT 7 cut(s) 225, 308, 487, 713, 839, 958, 1240
SsiI CCGC 4 cut(s) 251, 783, 1439, 1684
SspMI CTAG 1 cut(s) 743
StyD4I CCNGG 5 cut(s) 68, 110, 496, 687, 1010
TaaI ACNGT 1 cut(s) 1228
TaqI TCGA 7 cut(s) 159, 621, 762, 852, 1049, 1528, 1622
TasI AATT 7 cut(s) 225, 308, 487, 713, 839, 958, 1240
TauI GCSGC 2 cut(s) 785, 1441
TfiI GAWTC 4 cut(s) 1171, 1360, 1530, 1640
Tru1I TTAA 5 cut(s) 180, 716, 728, 1122, 1586
Tru9I TTAA 5 cut(s) 180, 716, 728, 1122, 1586
TscAI CASTG 1 cut(s) 1451
TseI GCWGC 2 cut(s) 286, 544
TspGWI ACGGA 1 cut(s) 1645
TspRI CASTG 1 cut(s) 1451
VpaK11BI GGWCC 3 cut(s) 338, 685, 773
XapI RAATTY 3 cut(s) 487, 839, 958
XbaI TCTAGA 1 cut(s) 742
XceI RCATGY 1 cut(s) 644
XcmI CCANNNNNNNNNTGG 1 cut(s) 76
XmiI GTMKAC 1 cut(s) 762
XmnI GAANNNNTTC 1 cut(s) 1427
XspI CTAG 1 cut(s) 743
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.