FvH4_6g42660

Ubiquitin fusion degradation protein UFD1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0011431
Physical Location & Seq
Forward (+)
33194331 .. 33197019
2689 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g42660.t1

Sequence Viewer

Length: 1884 bp
ATGTCCAAGAAGCAAGGAAATCCTAATAAGAAGAAAACAAGTTCTCCTTTTCCACAATCCTTTGGTTTCTTATTTCTTAACCAACACCAACACAAACACAAACACGAAGCTTCTGAATTCCGAGAACAAAAACCTCTTAAATTCCCAAATCGGACGAACCCAAAAACCCTAAAAATGGATTACGAGCTGAGGAGAGCGAGAGAGAAGCTGAACAAGGAGCAGAACGAGAGGAAAGAGATTGCCCGCAAGAGATTGGTGAGGGAGAGAAAGGCCAAAGAAGAAGCCAGGAAGCAAAGAGAAGCCCTCGACGCTGAGCGATCCAGACGCGTCTTCGATGCCGAACAAGCCCAGATTAAGGCTGATGACGAGATGCAGGAGAGCTTACTTGTGGGAAGAGGAATTGTGTTTTGTCGTGTGTTGGAAGCGGTAGCTTGTCAGGGTAGTGGAGATAAGATCAAGCTTCCAGCGTCATGCTTTAATGAATTGTCCGAGGGAGGTGCTTTTGATAAGGGACCGTTGTACTTTAAGTTGTCGGTAGTTCATCAGGAGGGTAAATCGGACGTGGTTGATGAGAAGGAAAAGAGTCGGAGCACACATTCAGGTGTTTTGGAGTTCACAGCTGATGAAGGTTTTGTTGGGCTTCCTCCTCATGTGTGGCAGAATTTATTTCCGGGGGATGCACCAGCGATCCCTTTGATTGAAGTTCGTTATGCCTGGCTGCCTAAAGGAACTTACGCCAAACTACAACCTCTTAGGGTAGGTTTCTCAGACTTGCCAAACCACAAGGCCATCCTTGAAACAACCCTTCGCCAGCATGCCACCCTTTCTGAAGATGATATATTTATAGTCAACTATGGGGACCTGGTTTATAAGTTAAAGGTTCTTGAATTAAAACCCTCTTCAAGTGTATCTGTTCTAGAAACAGATATTGAAGTTGACATAGTTGGTCCTGATGCTGCTGTGGAGAACAGTCATGATAATGTCCTAAAACCACTTACATTTGGAAAATCGGAATTTGGAATGGTTGATGAAGGACACTACACATATTACAAGTTCTCAATAGATAATGCTACTTGGGAGACCATTGCTTCTGGGGATGCCACAGTTGAGGTGAGGATAGAACCAGAGACAAATTCTGGGGATAGTGATATTTACATATCTAAGCATCCTCTCATATTCCCTACCAGGCACCAGCATGAATGGTCATCCCATGACATTGGTTCGAAGACTTTGATCCTTAGCTCAAAAGATAAGAGCTTGGAGGCAGGAACTTATACTCTTGGTGTTTATGGCTTTAAGGGAGAAACTAAGTATCATGTATCTGTGAATGTTCAAGATGTCAGGAACCAGAAGGTAGGCCAGAAGGTTGCGTCTTCCTCATCGTCAATGGATGTGGATACTGTAGAGTGTAAGAATTGTAAGCGTTATATACCCAGTCGGAGTATTGCACTCCATGAAGCGTATTGTAGCAGAAACAATGTTGTTTGTCAGCATACTGGTTGTGGAGTTGTTCTTAGGGTTGAGGAGGCCAAGAATCATGTGCATTGTCAAAAATGTGGACAACCTTTTCATCAGGAAGAGATGGAGAAGCACATGAAAGTGTTCCATGAGCCGCTTTACTGCCCTTGTGGTATTGTGCTTGAAAAGGAAGACATGGTGCAACATCAAGCCTCAGTTTGCCCCCTGCGCCTCGTGCCATGTCGATTCTGTGGAGACATGGTTCAAGCTGGAAGTTCTGCTATTGATGTTCGGGACAAGTTAAGAGGATTGTCTGAGCATGAGAGTCTCTGTGGGTCAAGGACTGCACCGTGCGATTCATGTGGGCGTTCTGTGATGTTGAAGGACATGGACATCCACCGTGTTGCCGTCCATCAAAAGAACTAA

Protein Analysis

628

Amino Acids

70.71

Weight (kDa)

7.34

Isoelectric Point (pI)

40.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UFD1_N1 PF03152 148 - 240 5.1e-16 Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2 PF24842 242 - 317 6.5e-28 Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 2
Znf_XAF1_N PF23580 464 - 492 8.6e-15 XIAP-associated factor 1-like, N-terminal zinc finger
TRAFD1-XIAF1_ZnF PF21366 590 - 619 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)
AanI TTATAA 1 cut(s) 870
AccB1I GGYRCC 1 cut(s) 1188
AccII CGCG 1 cut(s) 327
AciI CCGC 3 cut(s) 244, 425, 1613
AclWI GGATC 3 cut(s) 312, 682, 1228
AcsI RAATTY 5 cut(s) 116, 140, 661, 1013, 1132
AcuI CTGAAG 1 cut(s) 849
AfaI GTAC 1 cut(s) 521
AfiI CCNNNNNNNGG 2 cut(s) 175, 355
AflIII ACRYGT 1 cut(s) 325
AgsI TTSAA 9 cut(s) 701, 797, 887, 903, 932, 1334, 1643, 1724, 1840
AjiI CACGTC 1 cut(s) 562
AjnI CCWGG 4 cut(s) 284, 713, 861, 1184
AjuI GAANNNNNNNTTGG 2 cut(s) 618, 650
AloI GAACNNNNNNTCC 2 cut(s) 1704, 1736
Alw21I GWGCWC 1 cut(s) 593
Alw26I GTCTC 4 cut(s) 1073, 1121, 1707, 1790
AlwI GGATC 3 cut(s) 312, 682, 1228
AoxI GGCC 4 cut(s) 270, 786, 1357, 1527
ApeKI GCWGC 2 cut(s) 718, 956
ApoI RAATTY 5 cut(s) 116, 140, 661, 1013, 1132
Asp700I GAANNNNTTC 1 cut(s) 1601
AspLEI GCGC 1 cut(s) 1689
AspS9I GGNCC 3 cut(s) 512, 859, 947
AsuC2I CCSGG 1 cut(s) 672
AsuHPI GGTGA 2 cut(s) 268, 1123
AsuII TTCGAA 1 cut(s) 1223
AvaII GGWCC 3 cut(s) 512, 859, 947
BanI GGYRCC 1 cut(s) 1188
BauI CACGAG 1 cut(s) 1691
BbsI GAAGAC 4 cut(s) 322, 1232, 1365, 1656
Bbv12I GWGCWC 1 cut(s) 593
BbvCI CCTCAGC 1 cut(s) 188
BbvI GCAGC 2 cut(s) 705, 943
BccI CCATC 3 cut(s) 797, 1576, 1878
BceAI ACGGC 1 cut(s) 1850
BcgI CGANNNNNNTGC 2 cut(s) 479, 513
BciT130I CCWGG 4 cut(s) 286, 715, 863, 1186
BciVI GTATCC 1 cut(s) 1390
BcnI CCSGG 1 cut(s) 672
BcoDI GTCTC 4 cut(s) 1073, 1121, 1707, 1790
BfaI CTAG 1 cut(s) 917
BfmI CTRYAG 1 cut(s) 1401
BfuI GTATCC 1 cut(s) 1390
BisI GCNGC 3 cut(s) 719, 957, 1613
BlpI GCTNAGC 1 cut(s) 312
BlsI GCNGC 3 cut(s) 720, 958, 1614
Bme1390I CCNGG 5 cut(s) 286, 672, 715, 863, 1186
Bme18I GGWCC 3 cut(s) 512, 859, 947
BmgBI CACGTC 1 cut(s) 562
BmgT120I GGNCC 3 cut(s) 512, 859, 947
BmiI GGNNCC 4 cut(s) 513, 860, 1190, 1346
BmrFI CCNGG 5 cut(s) 286, 672, 715, 863, 1186
BmrI ACTGGG 1 cut(s) 1428
BmsI GCATC 6 cut(s) 325, 360, 667, 943, 1087, 1174
BmuI ACTGGG 1 cut(s) 1428
BpiI GAAGAC 4 cut(s) 322, 1232, 1365, 1656
BplI GAGNNNNNCTC 2 cut(s) 288, 320
Bpu10I CCTNAGC 2 cut(s) 188, 1238
Bpu1102I GCTNAGC 1 cut(s) 312
Bpu14I TTCGAA 1 cut(s) 1223
BpuMI CCSGG 1 cut(s) 672
BsaI GGTCTC 1 cut(s) 1073
BsaJI CCNNGG 2 cut(s) 489, 671
BsaXI ACNNNNNCTCC 4 cut(s) 28, 58, 1704, 1734
Bsc4I CCNNNNNNNGG 2 cut(s) 175, 355
Bse1I ACTGG 2 cut(s) 1434, 1501
Bse3DI GCAATG 1 cut(s) 1083
BseBI CCWGG 4 cut(s) 286, 715, 863, 1186
BseDI CCNNGG 2 cut(s) 489, 671
BseGI GGATG 7 cut(s) 682, 789, 1102, 1165, 1205, 1396, 1851
BseLI CCNNNNNNNGG 2 cut(s) 175, 355
BseMI GCAATG 1 cut(s) 1083
BseMII CTCAG 5 cut(s) 179, 303, 780, 1686, 1764
BseNI ACTGG 2 cut(s) 1434, 1501
BseRI GAGGAG 3 cut(s) 205, 636, 1538
BseXI GCAGC 2 cut(s) 705, 943
BsgI GTGCAG 1 cut(s) 1788
Bsh1236I CGCG 1 cut(s) 327
BshFI GGCC 4 cut(s) 272, 788, 1359, 1529
BshNI GGYRCC 1 cut(s) 1188
BsiHKAI GWGCWC 1 cut(s) 593
BsiSI CCGG 1 cut(s) 671
BslFI GGGAC 3 cut(s) 525, 872, 1766
BslI CCNNNNNNNGG 2 cut(s) 175, 355
BsmAI GTCTC 4 cut(s) 1073, 1121, 1707, 1790
BsmFI GGGAC 3 cut(s) 525, 872, 1766
BsnI GGCC 4 cut(s) 272, 788, 1359, 1529
Bso31I GGTCTC 1 cut(s) 1073
Bsp119I TTCGAA 1 cut(s) 1223
Bsp1286I GDGCHC 1 cut(s) 593
Bsp143I GATC 4 cut(s) 317, 453, 687, 1233
Bsp1720I GCTNAGC 1 cut(s) 312
BspACI CCGC 3 cut(s) 244, 425, 1613
BspANI GGCC 4 cut(s) 272, 788, 1359, 1529
BspCNI CTCAG 5 cut(s) 180, 304, 779, 1685, 1765
BspFNI CGCG 1 cut(s) 327
BspHI TCATGA 1 cut(s) 973
BspLI GGNNCC 4 cut(s) 513, 860, 1190, 1346
BspPI GGATC 3 cut(s) 312, 682, 1228
BspT104I TTCGAA 1 cut(s) 1223
BspT107I GGYRCC 1 cut(s) 1188
BspTNI GGTCTC 1 cut(s) 1073
BsrDI GCAATG 1 cut(s) 1083
BsrI ACTGG 2 cut(s) 1434, 1501
BssECI CCNNGG 2 cut(s) 489, 671
BssMI GATC 4 cut(s) 317, 453, 687, 1233
BssSI CACGAG 1 cut(s) 1691
Bst2BI CACGAG 1 cut(s) 1691
Bst2UI CCWGG 4 cut(s) 286, 715, 863, 1186
Bst4CI ACNGT 6 cut(s) 516, 971, 1105, 1402, 1809, 1859
Bst6I CTCTTC 3 cut(s) 388, 904, 1572
BstBI TTCGAA 1 cut(s) 1223
BstC8I GCNNGC 3 cut(s) 244, 812, 816
BstF5I GGATG 7 cut(s) 682, 789, 1102, 1165, 1205, 1396, 1851
BstFNI CGCG 1 cut(s) 327
BstHHI GCGC 1 cut(s) 1689
BstKTI GATC 4 cut(s) 320, 456, 690, 1236
BstMAI GTCTC 4 cut(s) 1073, 1121, 1707, 1790
BstMBI GATC 4 cut(s) 317, 453, 687, 1233
BstMWI GCNNNNNNNGC 4 cut(s) 308, 344, 1686, 1693
BstNI CCWGG 4 cut(s) 286, 715, 863, 1186
BstNSI RCATGY 1 cut(s) 818
BstSCI CCNGG 5 cut(s) 284, 670, 713, 861, 1184
BstSFI CTRYAG 1 cut(s) 1401
BstUI CGCG 1 cut(s) 327
BstV1I GCAGC 2 cut(s) 705, 943
BstV2I GAAGAC 4 cut(s) 322, 1232, 1365, 1656
BstXI CCANNNNNNTGG 1 cut(s) 1217
BsuI GTATCC 1 cut(s) 1390
BsuRI GGCC 4 cut(s) 272, 788, 1359, 1529
BtrI CACGTC 1 cut(s) 562
BtsCI GGATG 7 cut(s) 682, 789, 1102, 1165, 1205, 1396, 1851
Cac8I GCNNGC 3 cut(s) 244, 812, 816
CciI TCATGA 1 cut(s) 973
CfoI GCGC 1 cut(s) 1689
Cfr13I GGNCC 3 cut(s) 512, 859, 947
CseI GACGC 5 cut(s) 316, 317, 333, 456, 1359
CsiI ACCWGGT 1 cut(s) 861
Csp6I GTAC 1 cut(s) 520
CspCI CAANNNNNGTGG 2 cut(s) 1374, 1409
CviQI GTAC 1 cut(s) 520
DpnI GATC 4 cut(s) 319, 455, 689, 1235
DpnII GATC 4 cut(s) 317, 453, 687, 1233
Eam1104I CTCTTC 3 cut(s) 388, 904, 1572
EarI CTCTTC 3 cut(s) 388, 904, 1572
Eco31I GGTCTC 1 cut(s) 1073
Eco47I GGWCC 3 cut(s) 512, 859, 947
Eco57I CTGAAG 1 cut(s) 849
EcoO109I RGGNCCY 1 cut(s) 859
EcoRI GAATTC 1 cut(s) 116
EcoRII CCWGG 4 cut(s) 284, 713, 861, 1184
FalI AAGNNNNNCTT 2 cut(s) 31, 63
FaqI GGGAC 3 cut(s) 525, 872, 1766
FauI CCCGC 1 cut(s) 251
Fnu4HI GCNGC 3 cut(s) 719, 957, 1613
FokI GGATG 7 cut(s) 689, 776, 1109, 1152, 1192, 1403, 1838
Fsp4HI GCNGC 3 cut(s) 719, 957, 1613
FspBI CTAG 1 cut(s) 917
GlaI GCGC 1 cut(s) 1688
GluI GCNGC 3 cut(s) 719, 957, 1613
HaeIII GGCC 4 cut(s) 272, 788, 1359, 1529
HapII CCGG 1 cut(s) 671
HgaI GACGC 5 cut(s) 316, 317, 333, 456, 1359
HhaI GCGC 1 cut(s) 1689
Hin6I GCGC 1 cut(s) 1687
HinP1I GCGC 1 cut(s) 1687
HincII GTYRAC 2 cut(s) 850, 937
HindII GTYRAC 2 cut(s) 850, 937
HindIII AAGCTT 2 cut(s) 108, 458
HinfI GANTC 5 cut(s) 583, 1534, 1704, 1783, 1814
HpaII CCGG 1 cut(s) 671
HphI GGTGA 2 cut(s) 268, 1123
Hpy166II GTNNAC 4 cut(s) 615, 850, 937, 1559
Hpy8I GTNNAC 4 cut(s) 615, 850, 937, 1559
Hpy99I CGWCG 1 cut(s) 311
HpyAV CCTTC 7 cut(s) 568, 620, 815, 1025, 1345, 1357, 1834
HpyCH4III ACNGT 6 cut(s) 516, 971, 1105, 1402, 1809, 1859
HpyCH4IV ACGT 1 cut(s) 561
HpyCH4V TGCA 6 cut(s) 373, 680, 1448, 1543, 1660, 1805
HpyF10VI GCNNNNNNNGC 4 cut(s) 308, 344, 1686, 1693
HpySE526I ACGT 1 cut(s) 561
HspAI GCGC 1 cut(s) 1687
Kzo9I GATC 4 cut(s) 317, 453, 687, 1233
LmnI GCTCC 2 cut(s) 217, 588
Lsp1109I GCAGC 2 cut(s) 705, 943
LweI GCATC 6 cut(s) 325, 360, 667, 943, 1087, 1174
MabI ACCWGGT 1 cut(s) 861
MaeI CTAG 1 cut(s) 917
MaeII ACGT 1 cut(s) 561
MalI GATC 4 cut(s) 319, 455, 689, 1235
MboI GATC 4 cut(s) 317, 453, 687, 1233
MhlI GDGCHC 1 cut(s) 593
MluCI AATT 9 cut(s) 116, 140, 399, 482, 661, 887, 1013, 1132, 1414
MluI ACGCGT 1 cut(s) 325
MlyI GAGTC 2 cut(s) 592, 1792
MmeI TCCRAC 3 cut(s) 399, 566, 1418
MroXI GAANNNNTTC 1 cut(s) 1601
MseI TTAA 9 cut(s) 78, 138, 354, 477, 525, 875, 890, 1296, 1760
MslI CAYNNNNRTG 4 cut(s) 600, 978, 1194, 1598
MspA1I CMGCKG 1 cut(s) 620
MspI CCGG 1 cut(s) 671
MspR9I CCNGG 5 cut(s) 286, 672, 715, 863, 1186
MvaI CCWGG 4 cut(s) 286, 715, 863, 1186
MvnI CGCG 1 cut(s) 327
MwoI GCNNNNNNNGC 4 cut(s) 308, 344, 1686, 1693
NciI CCSGG 1 cut(s) 672
NdeII GATC 4 cut(s) 317, 453, 687, 1233
NlaIV GGNNCC 4 cut(s) 513, 860, 1190, 1346
NspI RCATGY 1 cut(s) 818
NspV TTCGAA 1 cut(s) 1223
PaeI GCATGC 1 cut(s) 818
PagI TCATGA 1 cut(s) 973
PdmI GAANNNNTTC 1 cut(s) 1601
PfeI GAWTC 3 cut(s) 1534, 1704, 1814
PkrI GCNGC 3 cut(s) 720, 958, 1614
PleI GAGTC 2 cut(s) 591, 1791
PpsI GAGTC 2 cut(s) 591, 1791
PpuMI RGGWCCY 1 cut(s) 859
PsiI TTATAA 1 cut(s) 870
Psp5II RGGWCCY 1 cut(s) 859
Psp6I CCWGG 4 cut(s) 284, 713, 861, 1184
PspGI CCWGG 4 cut(s) 284, 713, 861, 1184
PspN4I GGNNCC 4 cut(s) 513, 860, 1190, 1346
PspPI GGNCC 3 cut(s) 512, 859, 947
PspPPI RGGWCCY 1 cut(s) 859
PvuII CAGCTG 1 cut(s) 620
RsaI GTAC 1 cut(s) 521
RsaNI GTAC 1 cut(s) 520
RseI CAYNNNNRTG 4 cut(s) 600, 978, 1194, 1598
SaqAI TTAA 9 cut(s) 78, 138, 354, 477, 525, 875, 890, 1296, 1760
SatI GCNGC 3 cut(s) 719, 957, 1613
Sau3AI GATC 4 cut(s) 317, 453, 687, 1233
Sau96I GGNCC 3 cut(s) 512, 859, 947
SchI GAGTC 2 cut(s) 592, 1792
ScrFI CCNGG 5 cut(s) 286, 672, 715, 863, 1186
SduI GDGCHC 1 cut(s) 593
SexAI ACCWGGT 1 cut(s) 861
SfaNI GCATC 6 cut(s) 325, 360, 667, 943, 1087, 1174
SfcI CTRYAG 1 cut(s) 1401
SfuI TTCGAA 1 cut(s) 1223
SinI GGWCC 3 cut(s) 512, 859, 947
SmiMI CAYNNNNRTG 4 cut(s) 600, 978, 1194, 1598
SphI GCATGC 1 cut(s) 818
Sse9I AATT 9 cut(s) 116, 140, 399, 482, 661, 887, 1013, 1132, 1414
SsiI CCGC 3 cut(s) 244, 425, 1613
SspMI CTAG 1 cut(s) 917
StyD4I CCNGG 5 cut(s) 284, 670, 713, 861, 1184
TaaI ACNGT 6 cut(s) 516, 971, 1105, 1402, 1809, 1859
TaiI ACGT 1 cut(s) 564
TaqI TCGA 4 cut(s) 306, 333, 1223, 1702
TasI AATT 9 cut(s) 116, 140, 399, 482, 661, 887, 1013, 1132, 1414
TatI WGTACW 1 cut(s) 519
TauI GCSGC 1 cut(s) 1615
TfiI GAWTC 3 cut(s) 1534, 1704, 1814
Tru1I TTAA 9 cut(s) 78, 138, 354, 477, 525, 875, 890, 1296, 1760
Tru9I TTAA 9 cut(s) 78, 138, 354, 477, 525, 875, 890, 1296, 1760
TseI GCWGC 2 cut(s) 718, 956
TspDTI ATGAA 9 cut(s) 495, 530, 639, 1044, 1212, 1470, 1559, 1610, 1806
VpaK11BI GGWCC 3 cut(s) 512, 859, 947
XapI RAATTY 5 cut(s) 116, 140, 661, 1013, 1132
XbaI TCTAGA 1 cut(s) 916
XceI RCATGY 1 cut(s) 818
XmnI GAANNNNTTC 1 cut(s) 1601
XspI CTAG 1 cut(s) 917
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.