Rh3AG237200

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0016410
Physical Location & Seq
Reverse (-)
24581976 .. 24586447
4472 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG237200.1

Sequence Viewer

Length: 1086 bp
ATGATCGGATTGGGAAAATCTGGTAGAGCTGCGGCGAGGCTTGCTCTTGCCAGAGGTGCCGCTTCAGTTTTAGCATTTGACCACAACCCCACTTTGGGCCTCTTAGAGAAAGATCCCGTGTTTGAGGTGCATGGTGGTGATAATGGTGCATCGAGAACAATTTTGGGCCAATTTGATGGAGAGTTACTTAACAATGTGGACAGGGTGGTGGTGTCCCCTGGGGTTCCGCTACGAAAATATGGTCTTTCGTCTTTGTTGCAATCGGGAAAACAGGTGATGTCTGAGTTGGATTTTGCAGCTGAAATTCTCCCAAAATGTATCAAGATCTTAGCAGTGACAGGGACTAATGGAAAATCAACTGTTGTCACTTTTGCTGGACAGATGCTTAATCATTTGGGTATCAACACATTTTTGGGGGGTAATCTTGGAAATCCACTCTCAGAGGCTGCTTTCCATTGCTTACAGAACCCCCTTCTAAAACCAAAGTTTAAGGTTGCTGTGGTGGAGGTAGCTGTAGTGTTAAACCTTACACCTGATCATTTAGAAAGGCACAGGACAATGAGAGATTATGCAGTGACTAAATGCCAGTTATTTCGTCACATGAGTGATGCCAAGCTTGGGCTTCTTTGTTTTGGGAACCAGTACTTAAATGAAGCAGTTATGGGAAGCTTGAATGAAATTAATCTTGCTTGGATAGGAGCCACTCCAGGCGTAAGAATTGATATGGAAGCAAAAATTGCAAGCTTTGAAGTGCCTGCCTTGGGAATCAATTCTCAACTACAATTGGGCGCAATGACCATGATTGGAACACAGAACTGTCACAATGCTGCAGTTGCTGCTTTATCTGTTGTTGGACTGGATGTAGGACTTGATGTTGAAGCCATTGGTCCATGTATAGAAAAGTTAAGGCCACCACCTCATCGTATACAAATTGTATGCAAGGATATGCACGGGGTAACTTGGGTTGATGACAGCAAGGCAACAAGTGTAGAAGCTACGTACACAGGACTAATGGGTCTTAAAGAAGCAAAAGTCTGTGATTCTACTTGGTGGCCTTGTGAAGGTTGTGGACGGACATGTGTCTAA
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
2-Hacid_dh_C Mur_ligase_C Mur_ligase_M

Protein Analysis

361

Amino Acids

38.55

Weight (kDa)

6.79

Isoelectric Point (pI)

23.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MurD-like_N PF21799 2 - 93 1.1e-06 Mur ligase MurD-like, N-terminal domain
Mur_ligase_M PF08245 166 - 281 5.1e-11 Mur ligase middle 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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Orthologous Genes (Group: OG0016410)

Species Orthologous Gene IDs
malus_domestica MD12G1063100.v1.1
prunus_persica Prupe.7G070400_v2.0.a1
pyrus_communis pycom12g05560
rosa_chinensis RchiOBHm_Chr3g0480711 RchiOBHm_Chr3g0480721
rosa_multiflora Rmu_sc0001135.1_g000007 Rmu_sc0003902.1_g000026
rosa_roxburghii Rroxscaffold_6G00401140
rosa_rugosa Rorug03G0185000 Rorug03G0185100
rosa_samantha Rh3AG237200 Rh3BG270300 Rh3CG266500 Rh3DG262700
rosa_wichuraiana Rw3G021240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1014
AccB1I GGYRCC 1 cut(s) 56
AccI GTMKAC 1 cut(s) 925
AciI CCGC 3 cut(s) 32, 60, 227
AclWI GGATC 1 cut(s) 107
AcsI RAATTY 1 cut(s) 303
AcuI CTGAAG 1 cut(s) 48
AfaI GTAC 2 cut(s) 644, 1001
AfiI CCNNNNNNNGG 5 cut(s) 94, 95, 618, 761, 1061
AflIII ACRYGT 1 cut(s) 1076
AgsI TTSAA 3 cut(s) 673, 749, 878
AjnI CCWGG 2 cut(s) 217, 706
AleI CACNNNNGTG 1 cut(s) 603
AluBI AGCT 7 cut(s) 29, 299, 512, 616, 669, 744, 995
AluI AGCT 7 cut(s) 29, 299, 512, 616, 669, 744, 995
AlwI GGATC 1 cut(s) 107
AlwNI CAGNNNCTG 2 cut(s) 446, 836
AoxI GGCC 4 cut(s) 97, 166, 908, 1052
ApeKI GCWGC 5 cut(s) 29, 296, 446, 827, 836
ApoI RAATTY 1 cut(s) 303
ArsI GACNNNNNNTTYG 2 cut(s) 226, 258
AseI ATTAAT 1 cut(s) 681
Asp700I GAANNNNTTC 1 cut(s) 769
AspLEI GCGC 1 cut(s) 791
AspS9I GGNCC 3 cut(s) 97, 166, 887
AsuHPI GGTGA 2 cut(s) 149, 286
AvaII GGWCC 1 cut(s) 887
BanI GGYRCC 1 cut(s) 56
BbvI GCAGC 5 cut(s) 16, 308, 433, 814, 823
BccI CCATC 1 cut(s) 170
BciT130I CCWGG 2 cut(s) 219, 708
BclI TGATCA 1 cut(s) 535
BfmI CTRYAG 2 cut(s) 513, 828
BglII AGATCT 1 cut(s) 324
BisI GCNGC 7 cut(s) 30, 33, 60, 297, 447, 828, 837
BlsI GCNGC 7 cut(s) 31, 34, 61, 298, 448, 829, 838
BmcAI AGTACT 1 cut(s) 644
Bme1390I CCNGG 2 cut(s) 219, 708
Bme18I GGWCC 1 cut(s) 887
BmgT120I GGNCC 3 cut(s) 97, 166, 887
BmiI GGNNCC 4 cut(s) 58, 225, 638, 700
BmrFI CCNGG 2 cut(s) 219, 708
BmsI GCATC 3 cut(s) 158, 372, 598
BoxI GACNNNNGTC 1 cut(s) 1079
BplI GAGNNNNNCTC 2 cut(s) 28, 60
BpmI CTGGAG 1 cut(s) 690
BsaAI YACGTR 1 cut(s) 999
BsaJI CCNNGG 3 cut(s) 217, 218, 759
Bsc4I CCNNNNNNNGG 5 cut(s) 94, 95, 618, 761, 1061
Bse1I ACTGG 3 cut(s) 586, 640, 861
Bse3DI GCAATG 2 cut(s) 454, 798
BseBI CCWGG 2 cut(s) 219, 708
BseDI CCNNGG 3 cut(s) 217, 218, 759
BseGI GGATG 1 cut(s) 865
BseLI CCNNNNNNNGG 5 cut(s) 94, 95, 618, 761, 1061
BseMI GCAATG 2 cut(s) 454, 798
BseMII CTCAG 2 cut(s) 273, 453
BseNI ACTGG 3 cut(s) 586, 640, 861
BseXI GCAGC 5 cut(s) 16, 308, 433, 814, 823
BshFI GGCC 4 cut(s) 99, 168, 910, 1054
BshNI GGYRCC 1 cut(s) 56
BslFI GGGAC 2 cut(s) 199, 355
BslI CCNNNNNNNGG 5 cut(s) 94, 95, 618, 761, 1061
BsmFI GGGAC 2 cut(s) 199, 355
BsnI GGCC 4 cut(s) 99, 168, 910, 1054
Bsp143I GATC 4 cut(s) 3, 112, 324, 535
BspACI CCGC 3 cut(s) 32, 60, 227
BspANI GGCC 4 cut(s) 99, 168, 910, 1054
BspCNI CTCAG 2 cut(s) 274, 452
BspLI GGNNCC 4 cut(s) 58, 225, 638, 700
BspMAI CTGCAG 1 cut(s) 832
BspPI GGATC 1 cut(s) 107
BspT107I GGYRCC 1 cut(s) 56
BsrDI GCAATG 2 cut(s) 454, 798
BsrI ACTGG 3 cut(s) 586, 640, 861
BssECI CCNNGG 3 cut(s) 217, 218, 759
BssMI GATC 4 cut(s) 3, 112, 324, 535
BssNAI GTATAC 1 cut(s) 926
BssT1I CCWWGG 1 cut(s) 759
Bst1107I GTATAC 1 cut(s) 926
Bst2UI CCWGG 2 cut(s) 219, 708
Bst4CI ACNGT 2 cut(s) 361, 818
BstAPI GCANNNNNTGC 2 cut(s) 737, 836
BstBAI YACGTR 1 cut(s) 999
BstC8I GCNNGC 3 cut(s) 42, 742, 756
BstDEI CTNAG 4 cut(s) 103, 282, 328, 439
BstENI CCTNNNNNAGG 1 cut(s) 1059
BstF5I GGATG 1 cut(s) 865
BstHHI GCGC 1 cut(s) 791
BstKTI GATC 4 cut(s) 6, 115, 327, 538
BstMBI GATC 4 cut(s) 3, 112, 324, 535
BstMWI GCNNNNNNNGC 5 cut(s) 41, 56, 737, 833, 836
BstNI CCWGG 2 cut(s) 219, 708
BstNSI RCATGY 1 cut(s) 1080
BstPAI GACNNNNGTC 1 cut(s) 1079
BstSCI CCNGG 2 cut(s) 217, 706
BstSFI CTRYAG 2 cut(s) 513, 828
BstSNI TACGTA 1 cut(s) 999
BstV1I GCAGC 5 cut(s) 16, 308, 433, 814, 823
BstX2I RGATCY 2 cut(s) 112, 324
BstXI CCANNNNNNTGG 1 cut(s) 176
BstYI RGATCY 2 cut(s) 112, 324
BstZ17I GTATAC 1 cut(s) 926
BsuRI GGCC 4 cut(s) 99, 168, 910, 1054
BtsCI GGATG 1 cut(s) 865
BtsI GCAGTG 2 cut(s) 339, 579
BtsIMutI CAGTG 2 cut(s) 339, 579
Cac8I GCNNGC 3 cut(s) 42, 742, 756
CaiI CAGNNNCTG 2 cut(s) 446, 836
CfoI GCGC 1 cut(s) 791
Cfr13I GGNCC 3 cut(s) 97, 166, 887
Csp6I GTAC 2 cut(s) 643, 1000
CviAII CATG 5 cut(s) 131, 601, 799, 891, 1077
CviQI GTAC 2 cut(s) 643, 1000
DdeI CTNAG 4 cut(s) 103, 282, 328, 439
DpnI GATC 4 cut(s) 5, 114, 326, 537
DpnII GATC 4 cut(s) 3, 112, 324, 535
DrdI GACNNNNNNGTC 1 cut(s) 1014
DseDI GACNNNNNNGTC 1 cut(s) 1014
Eco105I TACGTA 1 cut(s) 999
Eco130I CCWWGG 1 cut(s) 759
Eco47I GGWCC 1 cut(s) 887
Eco57I CTGAAG 1 cut(s) 48
EcoNI CCTNNNNNAGG 1 cut(s) 1059
EcoRII CCWGG 2 cut(s) 217, 706
EcoT14I CCWWGG 1 cut(s) 759
ErhI CCWWGG 1 cut(s) 759
FaeI CATG 5 cut(s) 134, 604, 802, 894, 1080
FaqI GGGAC 2 cut(s) 199, 355
FatI CATG 5 cut(s) 130, 600, 798, 890, 1076
FbaI TGATCA 1 cut(s) 535
FblI GTMKAC 1 cut(s) 925
Fnu4HI GCNGC 7 cut(s) 30, 33, 60, 297, 447, 828, 837
FokI GGATG 1 cut(s) 872
Fsp4HI GCNGC 7 cut(s) 30, 33, 60, 297, 447, 828, 837
GlaI GCGC 1 cut(s) 790
GluI GCNGC 7 cut(s) 30, 33, 60, 297, 447, 828, 837
GsuI CTGGAG 1 cut(s) 690
HaeIII GGCC 4 cut(s) 99, 168, 910, 1054
HhaI GCGC 1 cut(s) 791
Hin1II CATG 5 cut(s) 134, 604, 802, 894, 1080
Hin6I GCGC 1 cut(s) 789
HinP1I GCGC 1 cut(s) 789
HindIII AAGCTT 3 cut(s) 614, 667, 742
HinfI GANTC 2 cut(s) 765, 1040
HphI GGTGA 2 cut(s) 149, 286
Hpy166II GTNNAC 4 cut(s) 199, 926, 1002, 1070
Hpy188I TCNGA 3 cut(s) 8, 283, 442
Hpy188III TCNNGA 3 cut(s) 153, 264, 322
Hpy8I GTNNAC 4 cut(s) 199, 926, 1002, 1070
HpyAV CCTTC 2 cut(s) 482, 1055
HpyCH4III ACNGT 2 cut(s) 361, 818
HpyCH4IV ACGT 1 cut(s) 998
HpyCH4V TGCA 9 cut(s) 130, 149, 259, 296, 572, 740, 830, 939, 949
HpyF10VI GCNNNNNNNGC 5 cut(s) 41, 56, 737, 833, 836
HpyF3I CTNAG 4 cut(s) 103, 282, 328, 439
HpySE526I ACGT 1 cut(s) 998
Hsp92II CATG 5 cut(s) 134, 604, 802, 894, 1080
HspAI GCGC 1 cut(s) 789
Ksp22I TGATCA 1 cut(s) 535
Kzo9I GATC 4 cut(s) 3, 112, 324, 535
LmnI GCTCC 1 cut(s) 698
Lsp1109I GCAGC 5 cut(s) 16, 308, 433, 814, 823
LweI GCATC 3 cut(s) 158, 372, 598
MaeII ACGT 1 cut(s) 998
MaeIII GTNAC 7 cut(s) 183, 334, 364, 574, 596, 818, 955
MalI GATC 4 cut(s) 5, 114, 326, 537
MboI GATC 4 cut(s) 3, 112, 324, 535
MfeI CAATTG 1 cut(s) 782
MflI RGATCY 2 cut(s) 112, 324
MluCI AATT 9 cut(s) 159, 170, 303, 678, 717, 735, 769, 782, 930
MmeI TCCRAC 2 cut(s) 267, 832
MnlI CCTC 7 cut(s) 30, 47, 110, 118, 436, 499, 927
MroXI GAANNNNTTC 1 cut(s) 769
MseI TTAA 8 cut(s) 189, 387, 489, 521, 647, 681, 905, 1020
MslI CAYNNNNRTG 2 cut(s) 135, 603
MspA1I CMGCKG 1 cut(s) 299
MspR9I CCNGG 2 cut(s) 219, 708
MunI CAATTG 1 cut(s) 782
MvaI CCWGG 2 cut(s) 219, 708
MwoI GCNNNNNNNGC 5 cut(s) 41, 56, 737, 833, 836
NdeII GATC 4 cut(s) 3, 112, 324, 535
NlaIII CATG 5 cut(s) 134, 604, 802, 894, 1080
NlaIV GGNNCC 4 cut(s) 58, 225, 638, 700
NmuCI GTSAC 5 cut(s) 334, 364, 574, 596, 818
NspI RCATGY 1 cut(s) 1080
OliI CACNNNNGTG 1 cut(s) 603
PasI CCCWGGG 1 cut(s) 218
PciI ACATGT 1 cut(s) 1076
PdmI GAANNNNTTC 1 cut(s) 769
PfeI GAWTC 2 cut(s) 765, 1040
PkrI GCNGC 7 cut(s) 31, 34, 61, 298, 448, 829, 838
Ppu21I YACGTR 1 cut(s) 999
PscI ACATGT 1 cut(s) 1076
PshAI GACNNNNGTC 1 cut(s) 1079
PshBI ATTAAT 1 cut(s) 681
Psp6I CCWGG 2 cut(s) 217, 706
PspGI CCWGG 2 cut(s) 217, 706
PspN4I GGNNCC 4 cut(s) 58, 225, 638, 700
PspPI GGNCC 3 cut(s) 97, 166, 887
PstI CTGCAG 1 cut(s) 832
PstNI CAGNNNCTG 2 cut(s) 446, 836
PsuI RGATCY 2 cut(s) 112, 324
PvuII CAGCTG 1 cut(s) 299
RsaI GTAC 2 cut(s) 644, 1001
RsaNI GTAC 2 cut(s) 643, 1000
RseI CAYNNNNRTG 2 cut(s) 135, 603
SaqAI TTAA 8 cut(s) 189, 387, 489, 521, 647, 681, 905, 1020
SatI GCNGC 7 cut(s) 30, 33, 60, 297, 447, 828, 837
Sau3AI GATC 4 cut(s) 3, 112, 324, 535
Sau96I GGNCC 3 cut(s) 97, 166, 887
ScaI AGTACT 1 cut(s) 644
ScrFI CCNGG 2 cut(s) 219, 708
SfaNI GCATC 3 cut(s) 158, 372, 598
SfcI CTRYAG 2 cut(s) 513, 828
SinI GGWCC 1 cut(s) 887
SmiMI CAYNNNNRTG 2 cut(s) 135, 603
SnaBI TACGTA 1 cut(s) 999
Sse9I AATT 9 cut(s) 159, 170, 303, 678, 717, 735, 769, 782, 930
SsiI CCGC 3 cut(s) 32, 60, 227
StyD4I CCNGG 2 cut(s) 217, 706
StyI CCWWGG 1 cut(s) 759
TaaI ACNGT 2 cut(s) 361, 818
TaiI ACGT 1 cut(s) 1001
TaqI TCGA 1 cut(s) 152
TasI AATT 9 cut(s) 159, 170, 303, 678, 717, 735, 769, 782, 930
TatI WGTACW 1 cut(s) 642
TauI GCSGC 2 cut(s) 35, 62
TfiI GAWTC 2 cut(s) 765, 1040
Tru1I TTAA 8 cut(s) 189, 387, 489, 521, 647, 681, 905, 1020
Tru9I TTAA 8 cut(s) 189, 387, 489, 521, 647, 681, 905, 1020
TscAI CASTG 2 cut(s) 339, 579
TseFI GTSAC 5 cut(s) 334, 364, 574, 596, 818
TseI GCWGC 5 cut(s) 29, 296, 446, 827, 836
Tsp45I GTSAC 5 cut(s) 334, 364, 574, 596, 818
TspDTI ATGAA 2 cut(s) 666, 690
TspRI CASTG 2 cut(s) 339, 579
VpaK11BI GGWCC 1 cut(s) 887
VspI ATTAAT 1 cut(s) 681
XagI CCTNNNNNAGG 1 cut(s) 1059
XapI RAATTY 1 cut(s) 303
XceI RCATGY 1 cut(s) 1080
XmiI GTMKAC 1 cut(s) 925
XmnI GAANNNNTTC 1 cut(s) 769
ZrmI AGTACT 1 cut(s) 644
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.