Rh4CG320800

REF SRPP-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0016829
Physical Location & Seq
Reverse (-)
58327624 .. 58329788
2165 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG320800.1

Sequence Viewer

Length: 666 bp
ATGTATCATCCACTTCCGATGATGCAGCTTGTTGTGGATCTTCATAACTTGCTCGGAGGAGACTCGAATCAGACTAGTGTGCGTGGGATCAGTGATGAGAATGAACGAGATCGCTGGGGAAAGAAGCCTATGAACACTGACGCAAGCAGAGGTAAGAAGGAGTTGAAGCGCCTGAGGGTTTTGAGGATGGCAGTGATTTACATGATGATGTTTGTGCTGAATCTGTACGAGTTCGCGAAGAAGAACTTGGGGCCTCTGAGATTGACTGTGTGGACTGTGGAGGTTGCTATGATCACTATTGTTGGTCCAGTCTACCAGAGATTCAAGGGAGTGCCTGATGATTTCTTTGCTTTACTCGACACGAAGATTGATGAAGCAGCTGACAAGTTTGATAAGCATGCTCCTCCTTTGGCTAAGCAGGTGGTGTACCTAACGCTAGGTTCTATCCAGAAAGCATTGAAAAAGACCCGAGAATTTGTGAACGAGGCTCAGGCTGGCGGTCTACACACAGCTATTCATTCTGCAGCTACAGAATATAAGCTGCTTGTCTTCAACCAATCCATGAAGTTTTGGGTTGGACTCGAGTACCAGTGTCCTCCCATACACACAGTGGTAGCCTTCTCTACACCAGCTGCTGCTTGTCCCGGAAATACAACAAGGTGGTAA

Protein Analysis

221

Amino Acids

24.98

Weight (kDa)

9.37

Isoelectric Point (pI)

25.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
REF PF05755 52 - 213 7.1e-44 Rubber elongation factor protein (REF)
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: OG0016829)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g23780
rosa_chinensis RchiOBHm_Chr4g0430271
rosa_laevigata RLG00000006989
rosa_multiflora Rmu_sc0001089.1_g000025 Rmu_sc0027338.1_g000002
rosa_roxburghii Rroxscaffold_5G00372070
rosa_rugosa Rorug04G0242200 Rorug04G0242300 Rorug04G0242400
rosa_samantha Rh4AG298700 Rh4BG305300 Rh4CG320800 Rh4DG302600
rosa_wichuraiana Rw4G025900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 409
Acc36I ACCTGC 1 cut(s) 409
AccI GTMKAC 2 cut(s) 312, 502
AccII CGCG 1 cut(s) 236
AciI CCGC 1 cut(s) 498
AclWI GGATC 2 cut(s) 45, 95
AcsI RAATTY 1 cut(s) 473
AdeI CACNNNGTG 1 cut(s) 610
AfaI GTAC 3 cut(s) 227, 428, 587
AgsI TTSAA 4 cut(s) 166, 325, 460, 553
AhlI ACTAGT 1 cut(s) 74
AjuI GAANNNNNNNTTGG 2 cut(s) 230, 262
AluBI AGCT 6 cut(s) 28, 380, 512, 527, 541, 632
AluI AGCT 6 cut(s) 28, 380, 512, 527, 541, 632
Alw26I GTCTC 1 cut(s) 54
AlwI GGATC 2 cut(s) 45, 95
AlwNI CAGNNNCTG 1 cut(s) 635
Ama87I CYCGRG 2 cut(s) 468, 581
AoxI GGCC 1 cut(s) 251
ApeKI GCWGC 6 cut(s) 25, 377, 524, 541, 632, 635
ApoI RAATTY 1 cut(s) 473
AspLEI GCGC 1 cut(s) 171
AspS9I GGNCC 2 cut(s) 251, 305
AsuC2I CCSGG 1 cut(s) 645
AvaI CYCGRG 2 cut(s) 468, 581
AvaII GGWCC 1 cut(s) 305
AxyI CCTNAGG 1 cut(s) 173
BaeI ACNNNNGTAYC 2 cut(s) 569, 602
BbsI GAAGAC 1 cut(s) 541
BbvI GCAGC 6 cut(s) 37, 389, 528, 536, 619, 622
BccI CCATC 1 cut(s) 181
BclI TGATCA 1 cut(s) 291
BcnI CCSGG 1 cut(s) 645
BcoDI GTCTC 1 cut(s) 54
BcuI ACTAGT 1 cut(s) 74
BfaI CTAG 2 cut(s) 75, 437
BfmI CTRYAG 2 cut(s) 522, 528
BfoI RGCGCY 1 cut(s) 172
BfuAI ACCTGC 1 cut(s) 409
BisI GCNGC 6 cut(s) 26, 378, 525, 542, 633, 636
BlpI GCTNAGC 1 cut(s) 414
BlsI GCNGC 6 cut(s) 27, 379, 526, 543, 634, 637
Bme1390I CCNGG 1 cut(s) 645
Bme18I GGWCC 1 cut(s) 305
BmeT110I CYCGRG 2 cut(s) 468, 581
BmgT120I GGNCC 2 cut(s) 251, 305
BmiI GGNNCC 1 cut(s) 252
BmrFI CCNGG 1 cut(s) 645
BmsI GCATC 1 cut(s) 12
BpiI GAAGAC 1 cut(s) 541
Bpu10I CCTNAGC 1 cut(s) 489
Bpu1102I GCTNAGC 1 cut(s) 414
BpuMI CCSGG 1 cut(s) 645
Bse1I ACTGG 2 cut(s) 308, 589
Bse21I CCTNAGG 1 cut(s) 173
BseGI GGATG 2 cut(s) 7, 192
BseMII CTCAG 3 cut(s) 164, 248, 503
BseNI ACTGG 2 cut(s) 308, 589
BseRI GAGGAG 2 cut(s) 72, 393
BseXI GCAGC 6 cut(s) 37, 389, 528, 536, 619, 622
BseYI CCCAGC 1 cut(s) 114
Bsh1236I CGCG 1 cut(s) 236
BshFI GGCC 1 cut(s) 253
BsiHKCI CYCGRG 2 cut(s) 468, 581
BsiSI CCGG 1 cut(s) 645
BslFI GGGAC 1 cut(s) 627
BsmAI GTCTC 1 cut(s) 54
BsmFI GGGAC 1 cut(s) 627
BsnI GGCC 1 cut(s) 253
BsoBI CYCGRG 2 cut(s) 468, 581
Bsp143I GATC 4 cut(s) 37, 87, 109, 291
Bsp1720I GCTNAGC 1 cut(s) 414
Bsp68I TCGCGA 1 cut(s) 236
BspACI CCGC 1 cut(s) 498
BspANI GGCC 1 cut(s) 253
BspCNI CTCAG 3 cut(s) 165, 249, 502
BspFNI CGCG 1 cut(s) 236
BspLI GGNNCC 1 cut(s) 252
BspMAI CTGCAG 1 cut(s) 526
BspMI ACCTGC 1 cut(s) 409
BspPI GGATC 2 cut(s) 45, 95
BsrI ACTGG 2 cut(s) 308, 589
BssMI GATC 4 cut(s) 37, 87, 109, 291
Bst4CI ACNGT 3 cut(s) 268, 277, 610
BstC8I GCNNGC 3 cut(s) 145, 399, 496
BstDEI CTNAG 4 cut(s) 173, 257, 414, 489
BstF5I GGATG 2 cut(s) 7, 192
BstFNI CGCG 1 cut(s) 236
BstH2I RGCGCY 1 cut(s) 172
BstHHI GCGC 1 cut(s) 171
BstKTI GATC 4 cut(s) 40, 90, 112, 294
BstMAI GTCTC 1 cut(s) 54
BstMBI GATC 4 cut(s) 37, 87, 109, 291
BstNSI RCATGY 1 cut(s) 401
BstSCI CCNGG 1 cut(s) 643
BstSFI CTRYAG 2 cut(s) 522, 528
BstUI CGCG 1 cut(s) 236
BstV1I GCAGC 6 cut(s) 37, 389, 528, 536, 619, 622
BstV2I GAAGAC 1 cut(s) 541
BstX2I RGATCY 1 cut(s) 37
BstYI RGATCY 1 cut(s) 37
Bsu36I CCTNAGG 1 cut(s) 173
BsuRI GGCC 1 cut(s) 253
BtsCI GGATG 2 cut(s) 7, 192
BtsI GCAGTG 1 cut(s) 198
BtsIMutI CAGTG 5 cut(s) 97, 135, 198, 596, 615
BtuMI TCGCGA 1 cut(s) 236
BveI ACCTGC 1 cut(s) 409
Cac8I GCNNGC 3 cut(s) 145, 399, 496
CaiI CAGNNNCTG 1 cut(s) 635
CfoI GCGC 1 cut(s) 171
Cfr13I GGNCC 2 cut(s) 251, 305
CseI GACGC 1 cut(s) 149
Csp6I GTAC 3 cut(s) 226, 427, 586
CviAII CATG 3 cut(s) 202, 398, 562
CviQI GTAC 3 cut(s) 226, 427, 586
DdeI CTNAG 4 cut(s) 173, 257, 414, 489
DpnI GATC 4 cut(s) 39, 89, 111, 293
DpnII GATC 4 cut(s) 37, 87, 109, 291
DraIII CACNNNGTG 1 cut(s) 610
Eco47I GGWCC 1 cut(s) 305
Eco81I CCTNAGG 1 cut(s) 173
Eco88I CYCGRG 2 cut(s) 468, 581
EcoO109I RGGNCCY 1 cut(s) 251
FaeI CATG 3 cut(s) 205, 401, 565
FaiI YATR 8 cut(s) 45, 131, 203, 290, 399, 537, 563, 602
FalI AAGNNNNNCTT 2 cut(s) 230, 262
FaqI GGGAC 1 cut(s) 627
FatI CATG 3 cut(s) 201, 397, 561
FbaI TGATCA 1 cut(s) 291
FblI GTMKAC 2 cut(s) 312, 502
Fnu4HI GCNGC 6 cut(s) 26, 378, 525, 542, 633, 636
FokI GGATG 1 cut(s) 199
Fsp4HI GCNGC 6 cut(s) 26, 378, 525, 542, 633, 636
FspBI CTAG 2 cut(s) 75, 437
GlaI GCGC 1 cut(s) 170
GluI GCNGC 6 cut(s) 26, 378, 525, 542, 633, 636
GsaI CCCAGC 1 cut(s) 118
HaeII RGCGCY 1 cut(s) 172
HaeIII GGCC 1 cut(s) 253
HapII CCGG 1 cut(s) 645
HgaI GACGC 1 cut(s) 149
HhaI GCGC 1 cut(s) 171
Hin1II CATG 3 cut(s) 205, 401, 565
Hin6I GCGC 1 cut(s) 169
HinP1I GCGC 1 cut(s) 169
HinfI GANTC 5 cut(s) 62, 67, 220, 321, 579
HpaII CCGG 1 cut(s) 645
Hpy166II GTNNAC 5 cut(s) 273, 313, 427, 481, 503
Hpy188I TCNGA 4 cut(s) 18, 56, 72, 258
Hpy188III TCNNGA 2 cut(s) 235, 448
Hpy8I GTNNAC 5 cut(s) 273, 313, 427, 481, 503
HpyAV CCTTC 2 cut(s) 151, 628
HpyCH4III ACNGT 3 cut(s) 268, 277, 610
HpyCH4V TGCA 2 cut(s) 25, 524
HpyF3I CTNAG 4 cut(s) 173, 257, 414, 489
Hsp92II CATG 3 cut(s) 205, 401, 565
HspAI GCGC 1 cut(s) 169
Ksp22I TGATCA 1 cut(s) 291
Kzo9I GATC 4 cut(s) 37, 87, 109, 291
LmnI GCTCC 1 cut(s) 406
Lsp1109I GCAGC 6 cut(s) 37, 389, 528, 536, 619, 622
LweI GCATC 1 cut(s) 12
MaeI CTAG 2 cut(s) 75, 437
MalI GATC 4 cut(s) 39, 89, 111, 293
MboI GATC 4 cut(s) 37, 87, 109, 291
MboII GAAGA 5 cut(s) 32, 250, 253, 376, 541
MflI RGATCY 1 cut(s) 37
MluCI AATT 1 cut(s) 473
MlyI GAGTC 2 cut(s) 56, 573
MmeI TCCRAC 1 cut(s) 556
MnlI CCTC 9 cut(s) 50, 143, 168, 177, 264, 274, 414, 478, 606
MslI CAYNNNNRTG 1 cut(s) 206
MspA1I CMGCKG 2 cut(s) 380, 632
MspI CCGG 1 cut(s) 645
MspR9I CCNGG 1 cut(s) 645
MvnI CGCG 1 cut(s) 236
NciI CCSGG 1 cut(s) 645
NdeII GATC 4 cut(s) 37, 87, 109, 291
NlaIII CATG 3 cut(s) 205, 401, 565
NlaIV GGNNCC 1 cut(s) 252
NruI TCGCGA 1 cut(s) 236
NspI RCATGY 1 cut(s) 401
PaeI GCATGC 1 cut(s) 401
PaeR7I CTCGAG 1 cut(s) 581
PaqCI CACCTGC 1 cut(s) 409
PfeI GAWTC 3 cut(s) 67, 220, 321
PfoI TCCNGGA 1 cut(s) 643
PkrI GCNGC 6 cut(s) 27, 379, 526, 543, 634, 637
PleI GAGTC 2 cut(s) 56, 573
PpsI GAGTC 2 cut(s) 56, 573
PspFI CCCAGC 1 cut(s) 114
PspN4I GGNNCC 1 cut(s) 252
PspPI GGNCC 2 cut(s) 251, 305
PspXI VCTCGAGB 1 cut(s) 581
PstI CTGCAG 1 cut(s) 526
PstNI CAGNNNCTG 1 cut(s) 635
PsuI RGATCY 1 cut(s) 37
PvuII CAGCTG 2 cut(s) 380, 632
RruI TCGCGA 1 cut(s) 236
RsaI GTAC 3 cut(s) 227, 428, 587
RsaNI GTAC 3 cut(s) 226, 427, 586
RseI CAYNNNNRTG 1 cut(s) 206
SatI GCNGC 6 cut(s) 26, 378, 525, 542, 633, 636
Sau3AI GATC 4 cut(s) 37, 87, 109, 291
Sau96I GGNCC 2 cut(s) 251, 305
SchI GAGTC 2 cut(s) 56, 573
ScrFI CCNGG 1 cut(s) 645
SfaNI GCATC 1 cut(s) 12
SfcI CTRYAG 2 cut(s) 522, 528
Sfr274I CTCGAG 1 cut(s) 581
SinI GGWCC 1 cut(s) 305
SlaI CTCGAG 1 cut(s) 581
SmiMI CAYNNNNRTG 1 cut(s) 206
SmlI CTYRAG 1 cut(s) 581
SmoI CTYRAG 1 cut(s) 581
SpeI ACTAGT 1 cut(s) 74
SphI GCATGC 1 cut(s) 401
Sse9I AATT 1 cut(s) 473
SsiI CCGC 1 cut(s) 498
SspMI CTAG 2 cut(s) 75, 437
StyD4I CCNGG 1 cut(s) 643
TaaI ACNGT 3 cut(s) 268, 277, 610
TaqI TCGA 3 cut(s) 65, 357, 582
TasI AATT 1 cut(s) 473
TfiI GAWTC 3 cut(s) 67, 220, 321
TscAI CASTG 5 cut(s) 97, 142, 198, 596, 615
TseI GCWGC 6 cut(s) 25, 377, 524, 541, 632, 635
TspDTI ATGAA 6 cut(s) 32, 117, 146, 387, 506, 578
TspRI CASTG 5 cut(s) 97, 142, 198, 596, 615
VpaK11BI GGWCC 1 cut(s) 305
XapI RAATTY 1 cut(s) 473
XceI RCATGY 1 cut(s) 401
XcmI CCANNNNNNNNNTGG 1 cut(s) 607
XhoI CTCGAG 1 cut(s) 581
XmiI GTMKAC 2 cut(s) 312, 502
XspI CTAG 2 cut(s) 75, 437
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.