Rmu_ssc0000091.1_g000015

DNA polymerase alpha chain like domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000091.1
OG0008292
Physical Location & Seq
Reverse (-)
76892 .. 80670
3779 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1242 bp
atgaccactgagcagactctggctttcaagtctgtgagtgaatgggtttatttggatcaagcttcttcaccggcttccactgcagcttctggtgttgtggatgattttggggttcagaagactcttggaagaggtggagagaaggtggtgtttgaattgcattcacattcaaaatgcagtgatggctttctttcgccttccaagttggtggaaagggctcatggaaatggggtgaaagttcttgctctgacagatcatgacacaatgtctggcatccctgaggccctagaagcagctcgtagatttggcatgaagataattcctggtgttgaaatcagtacaattttccaaccaagaggagagtctgaactggaggaaccagtgcacatccttgcatattacagcagctgcgggccaacaagttttgaagagcttgaaaagttcttgtctaatataagggatggtcgttatcttcgtgcaaagaatatggtctccaaattgaacaagcttaagtttcctcttacatgggagcatgttgcaagggttgcaggcaagggagtcgctcctgggagattgcatgtggcccgagccatggttgaagccggttatgtggaaaatctgaaacaagcttttgcccgctatcttttcgatggtggacctgcatatgctacgggaagtgaaccaccaacagaggatgcaataaaaatgatatgtgatacgggaggtgtggctgtgctagctcatccatgggcattgaaaaatacagttgccatcatcagaagtttgaaagaagctggccttcatgggatggaagtttacagaagtgatggaaaactgactgcatacagtgatctagctgatacttatggtcttctgaagctaggagggtcagattaccatggccgaggtggacagggtgagtctgagctgggtagtgtgaaccttccagttttggttttgcgtgactttcttaaagtcgctcgaccaatttggtgtggtgccattagtcacatagtagagaactatgctgacgaaccttcagattcaaatctagcaaggattacaaggtttgggaagggaggttcccctttaagctgcggcaaggacatgattgatcgttgcttgtttttgtggttgacaaatgaagagaggcaaaatgcagtttttgaggccattaaactgaagctttctcgtatttcaattaatcacggaggaaaccaggttgccatagagagtaaataa
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
PHP

Protein Analysis

413

Amino Acids

44.91

Weight (kDa)

6.65

Isoelectric Point (pI)

33.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHP PF02811 52 - 131 1.1e-13 PHP 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 667
AccB1I GGYRCC 1 cut(s) 998
AciI CCGC 3 cut(s) 411, 637, 1098
AclWI GGATC 1 cut(s) 63
AcoI YGGCCR 1 cut(s) 901
AcuI CTGAAG 3 cut(s) 896, 1023, 1202
AfaI GTAC 1 cut(s) 340
AfiI CCNNNNNNNGG 1 cut(s) 592
AflII CTTAAG 1 cut(s) 509
AhdI GACNNNNNGTC 1 cut(s) 265
AjnI CCWGG 3 cut(s) 322, 565, 1218
AloI GAACNNNNNNTCC 2 cut(s) 1066, 1098
Alw21I GWGCWC 1 cut(s) 387
Alw26I GTCTC 1 cut(s) 496
Alw44I GTGCAC 1 cut(s) 383
AlwI GGATC 1 cut(s) 63
AlwNI CAGNNNCTG 3 cut(s) 19, 89, 408
Ama87I CYCGRG 1 cut(s) 585
AoxI GGCC 6 cut(s) 282, 413, 582, 796, 901, 1170
ApaLI GTGCAC 1 cut(s) 383
ApeKI GCWGC 5 cut(s) 83, 293, 405, 408, 1095
AseI ATTAAT 1 cut(s) 1203
AspS9I GGNCC 4 cut(s) 283, 413, 583, 656
AsuHPI GGTGA 3 cut(s) 60, 244, 929
AsuNHI GCTAGC 1 cut(s) 736
AvaI CYCGRG 1 cut(s) 585
AvaII GGWCC 1 cut(s) 656
AxyI CCTNAGG 1 cut(s) 279
BaeGI GKGCMC 1 cut(s) 387
BanI GGYRCC 1 cut(s) 998
BanII GRGCYC 1 cut(s) 220
BbsI GAAGAC 2 cut(s) 125, 863
Bbv12I GWGCWC 1 cut(s) 387
BbvI GCAGC 5 cut(s) 95, 305, 395, 417, 1082
BccI CCATC 6 cut(s) 176, 455, 644, 779, 802, 821
BcgI CGANNNNNNTGC 2 cut(s) 541, 575
BciT130I CCWGG 3 cut(s) 324, 567, 1220
BcoDI GTCTC 1 cut(s) 496
BfaI CTAG 5 cut(s) 287, 737, 854, 881, 1052
BfmI CTRYAG 1 cut(s) 81
BfrI CTTAAG 1 cut(s) 509
BfuAI ACCTGC 1 cut(s) 667
BisI GCNGC 6 cut(s) 84, 294, 406, 409, 1096, 1099
BlsI GCNGC 6 cut(s) 85, 295, 407, 410, 1097, 1100
Bme1390I CCNGG 3 cut(s) 324, 567, 1220
Bme18I GGWCC 1 cut(s) 656
BmeRI GACNNNNNGTC 1 cut(s) 265
BmeT110I CYCGRG 1 cut(s) 585
BmgT120I GGNCC 4 cut(s) 283, 413, 583, 656
BmiI GGNNCC 3 cut(s) 378, 1000, 1084
BmrFI CCNGG 3 cut(s) 324, 567, 1220
BmsI GCATC 2 cut(s) 282, 685
BmtI GCTAGC 1 cut(s) 740
BpiI GAAGAC 2 cut(s) 125, 863
BpmI CTGGAG 1 cut(s) 392
BsaBI GATNNNNATC 1 cut(s) 1047
BsaI GGTCTC 1 cut(s) 496
BsaJI CCNNGG 5 cut(s) 566, 591, 746, 898, 904
BsaXI ACNNNNNCTCC 2 cut(s) 129, 159
Bsc4I CCNNNNNNNGG 1 cut(s) 592
Bse118I RCCGGY 2 cut(s) 70, 602
Bse1I ACTGG 3 cut(s) 375, 380, 947
Bse21I CCTNAGG 1 cut(s) 279
Bse8I GATNNNNATC 1 cut(s) 1047
BseBI CCWGG 3 cut(s) 324, 567, 1220
BseDI CCNNGG 5 cut(s) 566, 591, 746, 898, 904
BseGI GGATG 7 cut(s) 106, 273, 387, 466, 700, 742, 813
BseJI GATNNNNATC 1 cut(s) 1047
BseLI CCNNNNNNNGG 1 cut(s) 592
BseMII CTCAG 2 cut(s) 270, 915
BseNI ACTGG 3 cut(s) 375, 380, 947
BseRI GAGGAG 1 cut(s) 372
BseSI GKGCMC 1 cut(s) 387
BseXI GCAGC 5 cut(s) 95, 305, 395, 417, 1082
BseYI CCCAGC 1 cut(s) 928
BshFI GGCC 6 cut(s) 284, 415, 584, 798, 903, 1172
BshNI GGYRCC 1 cut(s) 998
BsiHKAI GWGCWC 1 cut(s) 387
BsiHKCI CYCGRG 1 cut(s) 585
BsiSI CCGG 2 cut(s) 71, 603
BslI CCNNNNNNNGG 1 cut(s) 592
BsmAI GTCTC 1 cut(s) 496
BsmI GAATGC 1 cut(s) 160
BsnI GGCC 6 cut(s) 284, 415, 584, 798, 903, 1172
Bso31I GGTCTC 1 cut(s) 496
BsoBI CYCGRG 1 cut(s) 585
Bsp1286I GDGCHC 2 cut(s) 220, 387
Bsp143I GATC 4 cut(s) 55, 253, 850, 1114
Bsp19I CCATGG 3 cut(s) 591, 746, 898
BspACI CCGC 3 cut(s) 411, 637, 1098
BspANI GGCC 6 cut(s) 284, 415, 584, 798, 903, 1172
BspCNI CTCAG 2 cut(s) 271, 916
BspHI TCATGA 1 cut(s) 256
BspLI GGNNCC 3 cut(s) 378, 1000, 1084
BspMAI CTGCAG 1 cut(s) 85
BspMI ACCTGC 1 cut(s) 667
BspOI GCTAGC 1 cut(s) 740
BspPI GGATC 1 cut(s) 63
BspQI GCTCTTC 1 cut(s) 423
BspT107I GGYRCC 1 cut(s) 998
BspTI CTTAAG 1 cut(s) 509
BspTNI GGTCTC 1 cut(s) 496
BsrFI RCCGGY 2 cut(s) 70, 602
BsrI ACTGG 3 cut(s) 375, 380, 947
BssAI RCCGGY 2 cut(s) 70, 602
BssECI CCNNGG 5 cut(s) 566, 591, 746, 898, 904
BssMI GATC 4 cut(s) 55, 253, 850, 1114
BssT1I CCWWGG 3 cut(s) 591, 746, 898
Bst2UI CCWGG 3 cut(s) 324, 567, 1220
Bst4CI ACNGT 2 cut(s) 766, 848
Bst6I CTCTTC 3 cut(s) 124, 423, 1140
BstAFI CTTAAG 1 cut(s) 509
BstAPI GCANNNNNTGC 1 cut(s) 545
BstC8I GCNNGC 5 cut(s) 413, 550, 637, 738, 796
BstDEI CTNAG 3 cut(s) 9, 279, 924
BstDSI CCRYGG 3 cut(s) 591, 746, 898
BstF5I GGATG 7 cut(s) 106, 273, 387, 466, 700, 742, 813
BstKTI GATC 4 cut(s) 58, 256, 853, 1117
BstMAI GTCTC 1 cut(s) 496
BstMBI GATC 4 cut(s) 55, 253, 850, 1114
BstMWI GCNNNNNNNGC 5 cut(s) 80, 183, 290, 545, 737
BstNI CCWGG 3 cut(s) 324, 567, 1220
BstNSI RCATGY 2 cut(s) 536, 581
BstSCI CCNGG 3 cut(s) 322, 565, 1218
BstSFI CTRYAG 1 cut(s) 81
BstSLI GKGCMC 1 cut(s) 387
BstV1I GCAGC 5 cut(s) 95, 305, 395, 417, 1082
BstV2I GAAGAC 2 cut(s) 125, 863
BstXI CCANNNNNNTGG 1 cut(s) 208
Bsu36I CCTNAGG 1 cut(s) 279
BsuRI GGCC 6 cut(s) 284, 415, 584, 798, 903, 1172
BtgI CCRYGG 3 cut(s) 591, 746, 898
BtsCI GGATG 7 cut(s) 106, 273, 387, 466, 700, 742, 813
BtsI GCAGTG 2 cut(s) 78, 184
BtsIMutI CAGTG 5 cut(s) 6, 78, 184, 387, 853
BveI ACCTGC 1 cut(s) 667
Cac8I GCNNGC 5 cut(s) 413, 550, 637, 738, 796
CaiI CAGNNNCTG 3 cut(s) 19, 89, 408
CciI TCATGA 1 cut(s) 256
Cfr10I RCCGGY 2 cut(s) 70, 602
Cfr13I GGNCC 4 cut(s) 283, 413, 583, 656
CsiI ACCWGGT 1 cut(s) 1218
Csp6I GTAC 1 cut(s) 339
CviQI GTAC 1 cut(s) 339
DdeI CTNAG 3 cut(s) 9, 279, 924
DpnI GATC 4 cut(s) 57, 255, 852, 1116
DpnII GATC 4 cut(s) 55, 253, 850, 1114
DriI GACNNNNNGTC 1 cut(s) 265
EaeI YGGCCR 1 cut(s) 901
Eam1104I CTCTTC 3 cut(s) 124, 423, 1140
Eam1105I GACNNNNNGTC 1 cut(s) 265
EarI CTCTTC 3 cut(s) 124, 423, 1140
Eco130I CCWWGG 3 cut(s) 591, 746, 898
Eco24I GRGCYC 1 cut(s) 220
Eco31I GGTCTC 1 cut(s) 496
Eco47I GGWCC 1 cut(s) 656
Eco57I CTGAAG 3 cut(s) 896, 1023, 1202
Eco81I CCTNAGG 1 cut(s) 279
Eco88I CYCGRG 1 cut(s) 585
EcoO109I RGGNCCY 1 cut(s) 283
EcoRII CCWGG 3 cut(s) 322, 565, 1218
EcoT14I CCWWGG 3 cut(s) 591, 746, 898
EcoT38I GRGCYC 1 cut(s) 220
ErhI CCWWGG 3 cut(s) 591, 746, 898
FalI AAGNNNNNCTT 2 cut(s) 783, 815
FauI CCCGC 2 cut(s) 404, 644
FauNDI CATATG 1 cut(s) 664
Fnu4HI GCNGC 6 cut(s) 84, 294, 406, 409, 1096, 1099
FokI GGATG 7 cut(s) 113, 260, 374, 473, 707, 729, 820
FriOI GRGCYC 1 cut(s) 220
Fsp4HI GCNGC 6 cut(s) 84, 294, 406, 409, 1096, 1099
FspBI CTAG 5 cut(s) 287, 737, 854, 881, 1052
GluI GCNGC 6 cut(s) 84, 294, 406, 409, 1096, 1099
GsaI CCCAGC 1 cut(s) 932
GsuI CTGGAG 1 cut(s) 392
HaeIII GGCC 6 cut(s) 284, 415, 584, 798, 903, 1172
HapII CCGG 2 cut(s) 71, 603
HincII GTYRAC 1 cut(s) 1137
HindII GTYRAC 1 cut(s) 1137
HindIII AAGCTT 4 cut(s) 60, 506, 627, 1184
HinfI GANTC 6 cut(s) 16, 121, 362, 558, 920, 1043
HpaII CCGG 2 cut(s) 71, 603
HphI GGTGA 3 cut(s) 60, 244, 929
Hpy166II GTNNAC 7 cut(s) 385, 656, 680, 817, 911, 940, 1137
Hpy188I TCNGA 9 cut(s) 117, 249, 367, 621, 779, 876, 892, 925, 1042
Hpy188III TCNNGA 1 cut(s) 257
Hpy8I GTNNAC 7 cut(s) 385, 656, 680, 817, 911, 940, 1137
HpyAV CCTTC 6 cut(s) 136, 207, 809, 953, 1047, 1069
HpyCH4III ACNGT 2 cut(s) 766, 848
HpyF10VI GCNNNNNNNGC 5 cut(s) 80, 183, 290, 545, 737
HpyF3I CTNAG 3 cut(s) 9, 279, 924
Kzo9I GATC 4 cut(s) 55, 253, 850, 1114
LguI GCTCTTC 1 cut(s) 423
LmnI GCTCC 2 cut(s) 529, 568
Lsp1109I GCAGC 5 cut(s) 95, 305, 395, 417, 1082
LweI GCATC 2 cut(s) 282, 685
MabI ACCWGGT 1 cut(s) 1218
MaeI CTAG 5 cut(s) 287, 737, 854, 881, 1052
MaeIII GTNAC 2 cut(s) 962, 1007
MalI GATC 4 cut(s) 57, 255, 852, 1116
MboI GATC 4 cut(s) 55, 253, 850, 1114
MboII GAAGA 8 cut(s) 57, 130, 141, 325, 440, 464, 863, 1157
MhlI GDGCHC 2 cut(s) 220, 387
MluCI AATT 6 cut(s) 155, 318, 342, 497, 987, 1200
MlyI GAGTC 5 cut(s) 10, 115, 371, 567, 929
MmeI TCCRAC 1 cut(s) 373
MseI TTAA 5 cut(s) 510, 972, 1091, 1176, 1203
MslI CAYNNNNRTG 1 cut(s) 225
MspA1I CMGCKG 1 cut(s) 408
MspCI CTTAAG 1 cut(s) 509
MspI CCGG 2 cut(s) 71, 603
MspR9I CCNGG 3 cut(s) 324, 567, 1220
Mva1269I GAATGC 1 cut(s) 160
MvaI CCWGG 3 cut(s) 324, 567, 1220
MwoI GCNNNNNNNGC 5 cut(s) 80, 183, 290, 545, 737
NcoI CCATGG 3 cut(s) 591, 746, 898
NdeI CATATG 1 cut(s) 664
NdeII GATC 4 cut(s) 55, 253, 850, 1114
NheI GCTAGC 1 cut(s) 736
NlaIV GGNNCC 3 cut(s) 378, 1000, 1084
NmeAIII GCCGAG 1 cut(s) 929
NmuCI GTSAC 2 cut(s) 962, 1007
NspI RCATGY 2 cut(s) 536, 581
PagI TCATGA 1 cut(s) 256
PciSI GCTCTTC 1 cut(s) 423
PcsI WCGNNNNNNNCGW 1 cut(s) 472
PctI GAATGC 1 cut(s) 160
PfeI GAWTC 1 cut(s) 1043
PkrI GCNGC 6 cut(s) 85, 295, 407, 410, 1097, 1100
PleI GAGTC 5 cut(s) 10, 115, 370, 566, 928
PpsI GAGTC 5 cut(s) 10, 115, 370, 566, 928
PshBI ATTAAT 1 cut(s) 1203
Psp6I CCWGG 3 cut(s) 322, 565, 1218
PspFI CCCAGC 1 cut(s) 928
PspGI CCWGG 3 cut(s) 322, 565, 1218
PspN4I GGNNCC 3 cut(s) 378, 1000, 1084
PspPI GGNCC 4 cut(s) 283, 413, 583, 656
PstI CTGCAG 1 cut(s) 85
PstNI CAGNNNCTG 3 cut(s) 19, 89, 408
PvuII CAGCTG 1 cut(s) 408
RsaI GTAC 1 cut(s) 340
RsaNI GTAC 1 cut(s) 339
RseI CAYNNNNRTG 1 cut(s) 225
SapI GCTCTTC 1 cut(s) 423
SaqAI TTAA 5 cut(s) 510, 972, 1091, 1176, 1203
SatI GCNGC 6 cut(s) 84, 294, 406, 409, 1096, 1099
Sau3AI GATC 4 cut(s) 55, 253, 850, 1114
Sau96I GGNCC 4 cut(s) 283, 413, 583, 656
SchI GAGTC 5 cut(s) 10, 115, 371, 567, 929
ScrFI CCNGG 3 cut(s) 324, 567, 1220
SduI GDGCHC 2 cut(s) 220, 387
SexAI ACCWGGT 1 cut(s) 1218
SfaNI GCATC 2 cut(s) 282, 685
SfcI CTRYAG 1 cut(s) 81
SinI GGWCC 1 cut(s) 656
SmiMI CAYNNNNRTG 1 cut(s) 225
SmlI CTYRAG 1 cut(s) 509
SmoI CTYRAG 1 cut(s) 509
Sse9I AATT 6 cut(s) 155, 318, 342, 497, 987, 1200
SsiI CCGC 3 cut(s) 411, 637, 1098
SspMI CTAG 5 cut(s) 287, 737, 854, 881, 1052
StyD4I CCNGG 3 cut(s) 322, 565, 1218
StyI CCWWGG 3 cut(s) 591, 746, 898
TaaI ACNGT 2 cut(s) 766, 848
TaqI TCGA 2 cut(s) 648, 982
TasI AATT 6 cut(s) 155, 318, 342, 497, 987, 1200
TatI WGTACW 1 cut(s) 338
TauI GCSGC 1 cut(s) 1101
TfiI GAWTC 1 cut(s) 1043
Tru1I TTAA 5 cut(s) 510, 972, 1091, 1176, 1203
Tru9I TTAA 5 cut(s) 510, 972, 1091, 1176, 1203
TscAI CASTG 5 cut(s) 13, 85, 184, 387, 853
TseFI GTSAC 2 cut(s) 962, 1007
TseI GCWGC 5 cut(s) 83, 293, 405, 408, 1095
Tsp45I GTSAC 2 cut(s) 962, 1007
TspDTI ATGAA 3 cut(s) 326, 791, 1158
TspGWI ACGGA 1 cut(s) 1224
TspRI CASTG 5 cut(s) 13, 85, 184, 387, 853
Vha464I CTTAAG 1 cut(s) 509
VneI GTGCAC 1 cut(s) 383
VpaK11BI GGWCC 1 cut(s) 656
VspI ATTAAT 1 cut(s) 1203
XceI RCATGY 2 cut(s) 536, 581
XcmI CCANNNNNNNNNTGG 1 cut(s) 905
XspI CTAG 5 cut(s) 287, 737, 854, 881, 1052
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.