Rmu_sc0015323.1_g000004

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0015323.1
OG0000220
Physical Location & Seq
Forward (+)
18611 .. 19926
1316 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0015323.1_g000004.1.cds

Sequence Viewer

Length: 1023 bp
atgtctgtaactctaaggaagttaagacctcttccacaagttgtagaaactgcaactaatgctggaatcaacgtagagaaagtcttatatgaagaagttgttaaaaacccagaagataattcagatagtgatgatgcgtggggtggtacaacaactctagatagttctgatgatggtggagagggtggaagcagaacaggtggtggatgtgaaagatatgaatatggacaatcttctgtggatgaaggattaaaccaatttacctgtgaaggtaattttgatcatacaacccaagatgaagaccacgaagtgagaacagctggtcatggtgctcaagagaagacccgatatgggaggaggactagaggtgcaactgatgatcaaagtaacccatctgatgtttcttcaattgccttacctatcagtttaggcctagagcgtagtgggatctcaaatgaatctcatgaaggcaacaatcaatttggttatgatgcttatggatataatcaatatggagaagtatatgatcaatcatctagttgggttcatccttattatccccttataggggaaacagtcggcagctctaaagagatctataactatcatgttcatcactacaattcgcactatatgagtcatatgttttgttgggtaaccgatgttgagaaccacctcacttcaaagggaatattacccataatccaggcacctaacccggatcgtgtgttcgtgcaaacaccaacaaagcatgctcaagcagttatcttgatgcgacaccatatgaacaaggcactcagatcggagtatatgtcgatcaaggatgcaagagagctatgggtagcgctagcagtgcgctttggcaatgtccaagattccctcctccctgacttgaaggttcaatggaacaatatgcgctttgctgatttcaagtctattgctaaatataattcagaagcttttcgcctacagtccatgttgatgttttgtggacaacatgtcacagagcaagagctaatttag
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
Retrotran_gag_2 zf-CCHC

Protein Analysis

340

Amino Acids

38.27

Weight (kDa)

5.21

Isoelectric Point (pI)

42.75

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000220)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g14882 FvH4_1g25271 FvH4_2g02251 FvH4_2g02251 FvH4_2g12511 FvH4_3g12392 FvH4_4g13981 FvH4_5g27011 FvH4_5g27012 FvH4_6g04722 FvH4_6g19751 FvH4_6g31371 FvH4_6g35011 FvH4_7g02741 FvH4_7g02741 FvH4_7g11332
malus_domestica MD00G1003900.v1.1 MD00G1004000.v1.1 MD10G1094800.v1.1 MD13G1044700.v1.1 MD13G1176700.v1.1 MD15G1343300.v1.1 MD15G1444800.v1.1
prunus_persica Prupe.1G199600_v2.0.a1 Prupe.1G215800_v2.0.a1 Prupe.3G104200_v2.0.a1
pyrus_communis pycom06g06750 pycom08g00120 pycom08g00130 pycom10g02160 pycom11g16040 pycom11g16050 pycom11g17730 pycom15g19390 pycom15g25050 pycom15g25060 pycom16g24700 pycom16g24710 pycom5153684g00040
rosa_chinensis RchiOBHm_Chr1g0361971 RchiOBHm_Chr1g0383751 RchiOBHm_Chr2g0121831 RchiOBHm_Chr2g0121841 RchiOBHm_Chr2g0168971 RchiOBHm_Chr4g0384811 RchiOBHm_Chr4g0385621 RchiOBHm_Chr5g0012611 RchiOBHm_Chr6g0271241 RchiOBHm_Chr6g0289011 RchiOBHm_Chr7g0216171 RchiOBHm_Chr7g0216181 RchiOBHm_Chr7g0239421
rosa_laevigata RLG00000001765 RLG00000002860 RLG00000003609 RLG00000004743 RLG00000018385 RLG00000022782 RLG00000024093 RLG00000035412
rosa_multiflora Rmu_sc0000239.1_g000042 Rmu_sc0000292.1_g000005 Rmu_sc0000414.1_g000004 Rmu_sc0000441.1_g000099 Rmu_sc0000578.1_g000002 Rmu_sc0000666.1_g000019 Rmu_sc0000690.1_g000008 Rmu_sc0000821.1_g000011 Rmu_sc0001068.1_g000021 Rmu_sc0001696.1_g000017 Rmu_sc0001851.1_g000006 Rmu_sc0001940.1_g000018 Rmu_sc0002322.1_g000025 Rmu_sc0002343.1_g000030 Rmu_sc0002351.1_g000020 Rmu_sc0002371.1_g000025 Rmu_sc0002530.1_g000003 Rmu_sc0003206.1_g000001 Rmu_sc0003556.1_g000020 Rmu_sc0003906.1_g000002 Rmu_sc0004122.1_g000002 Rmu_sc0004283.1_g000013 Rmu_sc0004657.1_g000053 Rmu_sc0004657.1_g000054 Rmu_sc0004920.1_g000006 Rmu_sc0004990.1_g000001 Rmu_sc0005046.1_g000011 Rmu_sc0005134.1_g000006 Rmu_sc0005281.1_g000004 Rmu_sc0005704.1_g000010 Rmu_sc0005767.1_g000009 Rmu_sc0005789.1_g000031 Rmu_sc0005849.1_g000010 Rmu_sc0006736.1_g000020 Rmu_sc0006754.1_g000001 Rmu_sc0007663.1_g000010 Rmu_sc0007705.1_g000005 Rmu_sc0007883.1_g000003 Rmu_sc0007941.1_g000003 Rmu_sc0009618.1_g000009 Rmu_sc0009840.1_g000007 Rmu_sc0010800.1_g000007 Rmu_sc0011620.1_g000005 Rmu_sc0013423.1_g000002 Rmu_sc0014544.1_g000001 Rmu_sc0015323.1_g000004 Rmu_sc0023737.1_g000001 Rmu_sc0024470.1_g000005 Rmu_sc0032114.1_g000001 Rmu_ssc0000372.1_g000050 Rmu_ssc0000420.1_g000006
rosa_roxburghii Rroxscaffold_1G00014580 Rroxscaffold_1G00050290 Rroxscaffold_2G00093920 Rroxscaffold_2G00131720 Rroxscaffold_5G00351350 Rroxscaffold_5G00386210 Rroxscaffold_6G00392840 Rroxscaffold_6G00404480 Rroxscaffold_6G00405300
rosa_rugosa Rorug02G0533800 Rorug03G0200600 Rorug05G0329600 Rorug07G0139200 Rorug07G0341500 Rorug07G0341600 Rorug07G0341700 Rorug07G0341800
rosa_samantha Rh2BG114900 Rh2BG222900 Rh2DG253700 Rh3CG200000 Rh4BG186200 Rh4DG156200 Rh5AG145800 Rh5BG370600 Rh6AG123800 Rh6BG424900 Rh6DG105300 Rh7AG381900 Rh7CG288100 Rh7CG401400
rosa_wichuraiana Rw0G008270 Rw1G014540 Rw2G043790 Rw6G021690 Rw7G030100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 709
AclWI GGATC 2 cut(s) 455, 729
AdeI CACNNNGTG 1 cut(s) 310
AfaI GTAC 1 cut(s) 148
AfeI AGCGCT 1 cut(s) 846
AfiI CCNNNNNNNGG 4 cut(s) 351, 566, 567, 568
AflIII ACRYGT 1 cut(s) 997
AgsI TTSAA 5 cut(s) 408, 684, 895, 902, 931
AhdI GACNNNNNGTC 1 cut(s) 998
AjnI CCWGG 1 cut(s) 705
AloI GAACNNNNNNTCC 2 cut(s) 713, 745
AluBI AGCT 5 cut(s) 320, 585, 835, 959, 1015
AluI AGCT 5 cut(s) 320, 585, 835, 959, 1015
Alw21I GWGCWC 1 cut(s) 334
AlwI GGATC 2 cut(s) 455, 729
Aor51HI AGCGCT 1 cut(s) 846
AoxI GGCC 1 cut(s) 430
ApeKI GCWGC 1 cut(s) 582
Asp700I GAANNNNTTC 1 cut(s) 960
AspLEI GCGC 3 cut(s) 847, 858, 918
AsuC2I CCSGG 1 cut(s) 719
AsuNHI GCTAGC 1 cut(s) 847
BanI GGYRCC 1 cut(s) 709
BbsI GAAGAC 2 cut(s) 306, 347
Bbv12I GWGCWC 1 cut(s) 334
BbvI GCAGC 1 cut(s) 594
BccI CCATC 2 cut(s) 167, 400
BcgI CGANNNNNNTGC 2 cut(s) 783, 817
BciT130I CCWGG 1 cut(s) 707
BclI TGATCA 3 cut(s) 280, 379, 526
BcnI CCSGG 1 cut(s) 719
BfaI CTAG 5 cut(s) 158, 363, 434, 537, 848
BfmI CTRYAG 1 cut(s) 968
BfoI RGCGCY 1 cut(s) 848
BglII AGATCT 1 cut(s) 594
BisI GCNGC 1 cut(s) 583
BlsI GCNGC 1 cut(s) 584
Bme1390I CCNGG 2 cut(s) 707, 719
BmeRI GACNNNNNGTC 1 cut(s) 998
BmiI GGNNCC 1 cut(s) 711
BmrFI CCNGG 2 cut(s) 707, 719
BmsI GCATC 4 cut(s) 124, 481, 762, 814
BmtI GCTAGC 1 cut(s) 851
BpiI GAAGAC 2 cut(s) 306, 347
BpuEI CTTGAG 2 cut(s) 318, 741
BpuMI CCSGG 1 cut(s) 719
BsaXI ACNNNNNCTCC 2 cut(s) 797, 827
Bsc4I CCNNNNNNNGG 4 cut(s) 351, 566, 567, 568
Bse3DI GCAATG 1 cut(s) 871
BseBI CCWGG 1 cut(s) 707
BseGI GGATG 4 cut(s) 212, 247, 547, 829
BseLI CCNNNNNNNGG 4 cut(s) 351, 566, 567, 568
BseMI GCAATG 1 cut(s) 871
BseMII CTCAG 1 cut(s) 811
BseRI GAGGAG 2 cut(s) 370, 872
BseXI GCAGC 1 cut(s) 594
BshFI GGCC 1 cut(s) 432
BshNI GGYRCC 1 cut(s) 709
BsiHKAI GWGCWC 1 cut(s) 334
BsiSI CCGG 1 cut(s) 719
BslI CCNNNNNNNGG 4 cut(s) 351, 566, 567, 568
BsnI GGCC 1 cut(s) 432
Bsp1286I GDGCHC 1 cut(s) 334
Bsp143I GATC 8 cut(s) 280, 379, 447, 526, 594, 721, 800, 816
BspANI GGCC 1 cut(s) 432
BspCNI CTCAG 1 cut(s) 810
BspHI TCATGA 1 cut(s) 463
BspLI GGNNCC 1 cut(s) 711
BspOI GCTAGC 1 cut(s) 851
BspPI GGATC 2 cut(s) 455, 729
BspT107I GGYRCC 1 cut(s) 709
BsrDI GCAATG 1 cut(s) 871
BssMI GATC 8 cut(s) 280, 379, 447, 526, 594, 721, 800, 816
Bst2UI CCWGG 1 cut(s) 707
Bst4CI ACNGT 2 cut(s) 577, 972
Bst6I CTCTTC 1 cut(s) 36
BstAPI GCANNNNNTGC 1 cut(s) 59
BstC8I GCNNGC 2 cut(s) 753, 849
BstDEI CTNAG 2 cut(s) 14, 797
BstEII GGTNACC 1 cut(s) 655
BstF5I GGATG 4 cut(s) 212, 247, 547, 829
BstH2I RGCGCY 1 cut(s) 848
BstHHI GCGC 3 cut(s) 847, 858, 918
BstKTI GATC 8 cut(s) 283, 382, 450, 529, 597, 724, 803, 819
BstMBI GATC 8 cut(s) 280, 379, 447, 526, 594, 721, 800, 816
BstMWI GCNNNNNNNGC 2 cut(s) 59, 853
BstNI CCWGG 1 cut(s) 707
BstNSI RCATGY 2 cut(s) 755, 1001
BstPI GGTNACC 1 cut(s) 655
BstSCI CCNGG 2 cut(s) 705, 717
BstSFI CTRYAG 1 cut(s) 968
BstV1I GCAGC 1 cut(s) 594
BstV2I GAAGAC 2 cut(s) 306, 347
BstX2I RGATCY 2 cut(s) 447, 594
BstYI RGATCY 2 cut(s) 447, 594
BsuRI GGCC 1 cut(s) 432
BtsCI GGATG 4 cut(s) 212, 247, 547, 829
BtsI GCAGTG 1 cut(s) 858
BtsIMutI CAGTG 1 cut(s) 858
Cac8I GCNNGC 2 cut(s) 753, 849
CciI TCATGA 1 cut(s) 463
CfoI GCGC 3 cut(s) 847, 858, 918
Csp6I GTAC 1 cut(s) 147
CviAII CATG 6 cut(s) 326, 464, 608, 752, 976, 998
CviJI RGCY 6 cut(s) 320, 432, 585, 835, 959, 1015
CviKI_1 RGCY 6 cut(s) 320, 432, 585, 835, 959, 1015
CviQI GTAC 1 cut(s) 147
DdeI CTNAG 2 cut(s) 14, 797
DpnI GATC 8 cut(s) 282, 381, 449, 528, 596, 723, 802, 818
DpnII GATC 8 cut(s) 280, 379, 447, 526, 594, 721, 800, 816
DraIII CACNNNGTG 1 cut(s) 310
DriI GACNNNNNGTC 1 cut(s) 998
Eam1104I CTCTTC 1 cut(s) 36
Eam1105I GACNNNNNGTC 1 cut(s) 998
EarI CTCTTC 1 cut(s) 36
Eco147I AGGCCT 1 cut(s) 432
Eco47III AGCGCT 1 cut(s) 846
Eco91I GGTNACC 1 cut(s) 655
EcoO65I GGTNACC 1 cut(s) 655
EcoRII CCWGG 1 cut(s) 705
FaeI CATG 6 cut(s) 329, 467, 611, 755, 979, 1001
FatI CATG 6 cut(s) 325, 463, 607, 751, 975, 997
FauNDI CATATG 2 cut(s) 642, 783
FbaI TGATCA 3 cut(s) 280, 379, 526
Fnu4HI GCNGC 1 cut(s) 583
FokI GGATG 4 cut(s) 219, 254, 534, 836
Fsp4HI GCNGC 1 cut(s) 583
FspBI CTAG 5 cut(s) 158, 363, 434, 537, 848
GlaI GCGC 3 cut(s) 846, 857, 917
GluI GCNGC 1 cut(s) 583
HaeII RGCGCY 1 cut(s) 848
HaeIII GGCC 1 cut(s) 432
HapII CCGG 1 cut(s) 719
HhaI GCGC 3 cut(s) 847, 858, 918
Hin1II CATG 6 cut(s) 329, 467, 611, 755, 979, 1001
Hin6I GCGC 3 cut(s) 845, 856, 916
HinP1I GCGC 3 cut(s) 845, 856, 916
HindIII AAGCTT 1 cut(s) 957
HinfI GANTC 4 cut(s) 66, 458, 637, 875
HpaII CCGG 1 cut(s) 719
Hpy166II GTNNAC 1 cut(s) 992
Hpy188I TCNGA 6 cut(s) 124, 169, 397, 800, 805, 955
Hpy188III TCNNGA 4 cut(s) 158, 335, 464, 769
Hpy8I GTNNAC 1 cut(s) 992
HpyAV CCTTC 4 cut(s) 239, 263, 461, 889
HpyCH4III ACNGT 2 cut(s) 577, 972
HpyCH4IV ACGT 1 cut(s) 72
HpyCH4V TGCA 4 cut(s) 53, 371, 736, 827
HpyF10VI GCNNNNNNNGC 2 cut(s) 59, 853
HpyF3I CTNAG 2 cut(s) 14, 797
HpySE526I ACGT 1 cut(s) 72
Hsp92II CATG 6 cut(s) 329, 467, 611, 755, 979, 1001
HspAI GCGC 3 cut(s) 845, 856, 916
Ksp22I TGATCA 3 cut(s) 280, 379, 526
Kzo9I GATC 8 cut(s) 280, 379, 447, 526, 594, 721, 800, 816
LpnPI CCDG 9 cut(s) 48, 123, 183, 277, 306, 692, 719, 732, 900
Lsp1109I GCAGC 1 cut(s) 594
LweI GCATC 4 cut(s) 124, 481, 762, 814
MaeI CTAG 5 cut(s) 158, 363, 434, 537, 848
MaeII ACGT 1 cut(s) 72
MaeIII GTNAC 4 cut(s) 7, 386, 655, 1000
MalI GATC 8 cut(s) 282, 381, 449, 528, 596, 723, 802, 818
MboI GATC 8 cut(s) 280, 379, 447, 526, 594, 721, 800, 816
MboII GAAGA 7 cut(s) 23, 104, 125, 225, 311, 352, 396
MfeI CAATTG 1 cut(s) 408
MflI RGATCY 2 cut(s) 447, 594
MhlI GDGCHC 1 cut(s) 334
MluCI AATT 8 cut(s) 118, 257, 274, 408, 479, 622, 949, 1017
MlyI GAGTC 1 cut(s) 646
MnlI CCTC 8 cut(s) 39, 175, 348, 351, 359, 686, 890, 893
MroXI GAANNNNTTC 1 cut(s) 960
MseI TTAA 3 cut(s) 23, 102, 251
MslI CAYNNNNRTG 1 cut(s) 980
MspA1I CMGCKG 1 cut(s) 320
MspI CCGG 1 cut(s) 719
MspR9I CCNGG 2 cut(s) 707, 719
MunI CAATTG 1 cut(s) 408
MvaI CCWGG 1 cut(s) 707
MwoI GCNNNNNNNGC 2 cut(s) 59, 853
NciI CCSGG 1 cut(s) 719
NdeI CATATG 2 cut(s) 642, 783
NdeII GATC 8 cut(s) 280, 379, 447, 526, 594, 721, 800, 816
NheI GCTAGC 1 cut(s) 847
NlaIII CATG 6 cut(s) 329, 467, 611, 755, 979, 1001
NlaIV GGNNCC 1 cut(s) 711
NmuCI GTSAC 1 cut(s) 1000
NspI RCATGY 2 cut(s) 755, 1001
PaeI GCATGC 1 cut(s) 755
PagI TCATGA 1 cut(s) 463
PceI AGGCCT 1 cut(s) 432
PciI ACATGT 1 cut(s) 997
PdmI GAANNNNTTC 1 cut(s) 960
PfeI GAWTC 3 cut(s) 66, 458, 875
PkrI GCNGC 1 cut(s) 584
PleI GAGTC 1 cut(s) 645
PpsI GAGTC 1 cut(s) 645
PscI ACATGT 1 cut(s) 997
Psp6I CCWGG 1 cut(s) 705
PspEI GGTNACC 1 cut(s) 655
PspGI CCWGG 1 cut(s) 705
PspN4I GGNNCC 1 cut(s) 711
PsuI RGATCY 2 cut(s) 447, 594
PvuII CAGCTG 1 cut(s) 320
RsaI GTAC 1 cut(s) 148
RsaNI GTAC 1 cut(s) 147
RseI CAYNNNNRTG 1 cut(s) 980
SaqAI TTAA 3 cut(s) 23, 102, 251
SatI GCNGC 1 cut(s) 583
Sau3AI GATC 8 cut(s) 280, 379, 447, 526, 594, 721, 800, 816
SchI GAGTC 1 cut(s) 646
ScrFI CCNGG 2 cut(s) 707, 719
SduI GDGCHC 1 cut(s) 334
SfaNI GCATC 4 cut(s) 124, 481, 762, 814
SfcI CTRYAG 1 cut(s) 968
SmiMI CAYNNNNRTG 1 cut(s) 980
SmlI CTYRAG 2 cut(s) 333, 756
SmoI CTYRAG 2 cut(s) 333, 756
SphI GCATGC 1 cut(s) 755
Sse9I AATT 8 cut(s) 118, 257, 274, 408, 479, 622, 949, 1017
SseBI AGGCCT 1 cut(s) 432
SspI AATATT 1 cut(s) 693
SspMI CTAG 5 cut(s) 158, 363, 434, 537, 848
StuI AGGCCT 1 cut(s) 432
StyD4I CCNGG 2 cut(s) 705, 717
TaaI ACNGT 2 cut(s) 577, 972
TaiI ACGT 1 cut(s) 75
TaqI TCGA 1 cut(s) 815
TasI AATT 8 cut(s) 118, 257, 274, 408, 479, 622, 949, 1017
TfiI GAWTC 3 cut(s) 66, 458, 875
Tru1I TTAA 3 cut(s) 23, 102, 251
Tru9I TTAA 3 cut(s) 23, 102, 251
TscAI CASTG 1 cut(s) 858
TseFI GTSAC 1 cut(s) 1000
TseI GCWGC 1 cut(s) 582
Tsp45I GTSAC 1 cut(s) 1000
TspDTI ATGAA 9 cut(s) 105, 234, 258, 312, 471, 480, 536, 602, 800
TspRI CASTG 1 cut(s) 858
XbaI TCTAGA 1 cut(s) 157
XceI RCATGY 2 cut(s) 755, 1001
XmnI GAANNNNTTC 1 cut(s) 960
XspI CTAG 5 cut(s) 158, 363, 434, 537, 848
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.