Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001286

Physical Location & Seq

Genomic Coordinates Forward (+)

5410391 .. 5416307

Gene Structure 5917 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG065500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 999 bp

ATGCCGGCACAGAAGCGTGGCTTCGAGGCCGCGGAGGACGGTGATCCTGTGGAGAACCACCGCGAGAACGGCCTTGAGGAGCCGCAGGACGGAGAAGAGTCCGATCGGAGCCGGAGCCCCGAGCCGAGTGAGGACGAGAAGGACGACCAGAAACCCGAATACGTTGCAGTAAGACTGTCAGAAATTCGGAAAGAAGTGCAATGCCCCATCTGTCTAGGGATCATTAGGAAAACAAGAACAGTGATGGAATGCCTGCACCGCTTCTGTAGGGAATGCATTGACAAGTCCATGCGGCTTGGGAACAATGAATGCCCTGCATGCCGTACACATTGTGCTAGTCGTCGCTCTTTGAGAGATGATCCGAAGTACGATGCCTTAATTGCAGCTATTTATCCGGATATTGACAAGTATGAGGAAGAGGAATTAGCTTTTCATGAAGAAGAGAAGGCTCGCAATAAGCAGATCCAAGCTTCCATTGCCCAGACATTTCGACGACAATCCGAAGCACTTGGTAGGAAGCGAACAGCAAAAGCCACTGCAGCAGCATTTATGAGATCACAGGGTAACTATAAAAATTTGAGGAGGAGAAGGAATCATAAAAATACTGTTGAAATTCAAGGATCCGATGACAATGAGGAGGCAAATGGTAATGATGGAGGAAAAGATTCATCTTCTGGTGATGAGCGCAAAGAACCAAGACCAAAAAGACCCAAAAGATGGGCAGGAGCTCGATATTATCAGCCTTCATCAGCAACTGCGAATGCAGATGGTGATGATGAAAATGATTATGAGGTGAACAGAGAAGTTATTGGTGCATCTGTGGGATTTGTTGGCAGTCCAGAAAGGCTTGCATGGGGTAAAGGTGGCATGCGGAGTCATACACGATATGGCAGTTCTAGTGGTGCCAATGGTAAGAATGCCAGGAACCGCCTTTCTAAGTTGGTGGATTATCTCCGGAACTCGGAAGCTAATGATAAAGGGGTAAGTTTTTTAGTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000152 GO:0001709 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009888 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010073 GO:0010074 GO:0010076 GO:0010077 GO:0010468 GO:0010492 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0019827 GO:0030154 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031519 GO:0032501 GO:0032502 GO:0032991 GO:0035102 GO:0040029 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045165 GO:0045814 GO:0045892 GO:0045934 GO:0048507 GO:0048519 GO:0048523 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0080090 GO:0098727 GO:1902494 GO:1902679 GO:1903506 GO:1903507 GO:1990234 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_2

Protein Analysis

332

Amino Acids

37.46

Weight (kDa)

7.02

Isoelectric Point (pI)

68.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	67 - 107	9.1e-12	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	67 - 108	8.8e-08	Ring finger domain
zf-C3HC4	PF00097	68 - 107	6.5e-10	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001286)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G44280 AT5G44280 AT5G44280
fragaria_vesca	FvH4_3g08840 FvH4_3g08840 FvH4_3g08840 FvH4_3g08840 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540 FvH4_6g26540
malus_domestica	MD05G1312000.v1.1 MD09G1244000.v1.1 MD10G1291500.v1.1 MD17G1235900.v1.1
prunus_persica	Prupe.3G139900_v2.0.a1 Prupe.3G139900_v2.0.a1 Prupe.3G139900_v2.0.a1 Prupe.3G139900_v2.0.a1 Prupe.3G139900_v2.0.a1 Prupe.4G050700_v2.0.a1 Prupe.4G050700_v2.0.a1 Prupe.4G050700_v2.0.a1
pyrus_communis	pycom05g28800 pycom09g16250 pycom10g24370
rosa_chinensis	RchiOBHm_Chr2g0127611 RchiOBHm_Chr5g0008911
rosa_laevigata	RLG00000018950 RLG00000031615
rosa_multiflora	Rmu_co8349609.1_g000001 Rmu_sc0004677.1_g000011 Rmu_ssc0000200.1_g000019
rosa_roxburghii	Rroxscaffold_1G00067100 Rroxscaffold_1G00067720 Rroxscaffold_2G00116570
rosa_rugosa	Rorug02G0272500 Rorug02G0272500 Rorug02G0272500 Rorug02G0272500 Rorug04G0440100
rosa_samantha	Rh2AG324500 Rh2BG333800 Rh2CG312000 Rh2DG352000 Rh5AG068800 Rh5BG065500 Rh5CG076700 Rh5DG064500
rosa_wichuraiana	Rw2G026350 Rw5G006440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	902
AccB7I	CCANNNNNTGG	1 cut(s)	717
AccII	CGCG	2 cut(s)	32, 63
AccIII	TCCGGA	2 cut(s)	394, 954
AciI	CCGC	8 cut(s)	30, 32, 61, 83, 259, 292, 871, 928
AclWI	GGATC	6 cut(s)	38, 227, 353, 457, 615, 628
AcsI	RAATTY	3 cut(s)	183, 574, 612
AdeI	CACNNNGTG	1 cut(s)	332
AfaI	GTAC	2 cut(s)	325, 368
AfiI	CCNNNNNNNGG	3 cut(s)	89, 717, 961
AgsI	TTSAA	2 cut(s)	611, 617
AjnI	CCWGG	1 cut(s)	920
AluBI	AGCT	5 cut(s)	386, 428, 470, 728, 968
AluI	AGCT	5 cut(s)	386, 428, 470, 728, 968
Alw21I	GWGCWC	1 cut(s)	730
AlwI	GGATC	6 cut(s)	38, 227, 353, 457, 615, 628
AlwNI	CAGNNNCTG	1 cut(s)	755
Ama87I	CYCGRG	1 cut(s)	119
Aor13HI	TCCGGA	2 cut(s)	394, 954
AoxI	GGCC	2 cut(s)	27, 70
ApeKI	GCWGC	3 cut(s)	383, 539, 542
ApoI	RAATTY	3 cut(s)	183, 574, 612
Asp700I	GAANNNNTTC	1 cut(s)	664
AspLEI	GCGC	1 cut(s)	687
AsuHPI	GGTGA	4 cut(s)	53, 689, 782, 805
AvaI	CYCGRG	1 cut(s)	119
BamHI	GGATCC	1 cut(s)	620
BanI	GGYRCC	1 cut(s)	902
BanII	GRGCYC	2 cut(s)	119, 730
Bbv12I	GWGCWC	1 cut(s)	730
BbvI	GCAGC	3 cut(s)	395, 551, 554
BccI	CCATC	5 cut(s)	215, 238, 647, 711, 761
BceAI	ACGGC	2 cut(s)	85, 306
BcgI	CGANNNNNNTGC	2 cut(s)	146, 180
BciT130I	CCWGG	1 cut(s)	922
BfaI	CTAG	3 cut(s)	215, 336, 897
BfmI	CTRYAG	2 cut(s)	265, 537
BisI	GCNGC	6 cut(s)	30, 83, 293, 384, 540, 543
BlsI	GCNGC	6 cut(s)	31, 84, 294, 385, 541, 544
Bme1390I	CCNGG	1 cut(s)	922
BmeT110I	CYCGRG	1 cut(s)	119
BmiI	GGNNCC	6 cut(s)	81, 110, 116, 622, 904, 926
BmrFI	CCNGG	1 cut(s)	922
BmsI	GCATC	2 cut(s)	361, 824
BpuEI	CTTGAG	1 cut(s)	95
BsaJI	CCNNGG	1 cut(s)	30
BsaWI	WCCGGW	2 cut(s)	394, 954
Bsc4I	CCNNNNNNNGG	3 cut(s)	89, 717, 961
Bse118I	RCCGGY	1 cut(s)	4
Bse3DI	GCAATG	2 cut(s)	206, 474
BseAI	TCCGGA	2 cut(s)	394, 954
BseBI	CCWGG	1 cut(s)	922
BseDI	CCNNGG	1 cut(s)	30
BseLI	CCNNNNNNNGG	3 cut(s)	89, 717, 961
BseMI	GCAATG	2 cut(s)	206, 474
BseRI	GAGGAG	4 cut(s)	92, 595, 598, 650
BseXI	GCAGC	3 cut(s)	395, 551, 554
BsgI	GTGCAG	1 cut(s)	239
Bsh1236I	CGCG	2 cut(s)	32, 63
Bsh1285I	CGRYCG	1 cut(s)	106
BshFI	GGCC	2 cut(s)	29, 72
BshNI	GGYRCC	1 cut(s)	902
BsiEI	CGRYCG	1 cut(s)	106
BsiHKAI	GWGCWC	1 cut(s)	730
BsiHKCI	CYCGRG	1 cut(s)	119
BsiSI	CCGG	4 cut(s)	5, 112, 395, 955
BslI	CCNNNNNNNGG	3 cut(s)	89, 717, 961
BsmI	GAATGC	5 cut(s)	254, 278, 314, 766, 922
BsnI	GGCC	2 cut(s)	29, 72
BsoBI	CYCGRG	1 cut(s)	119
Bsp1286I	GDGCHC	2 cut(s)	119, 730
Bsp13I	TCCGGA	2 cut(s)	394, 954
Bsp143I	GATC	7 cut(s)	43, 103, 219, 358, 462, 554, 620
BspACI	CCGC	8 cut(s)	30, 32, 61, 83, 259, 292, 871, 928
BspANI	GGCC	2 cut(s)	29, 72
BspEI	TCCGGA	2 cut(s)	394, 954
BspFNI	CGCG	2 cut(s)	32, 63
BspHI	TCATGA	1 cut(s)	433
BspLI	GGNNCC	6 cut(s)	81, 110, 116, 622, 904, 926
BspMAI	CTGCAG	1 cut(s)	541
BspPI	GGATC	6 cut(s)	38, 227, 353, 457, 615, 628
BspT107I	GGYRCC	1 cut(s)	902
BsrDI	GCAATG	2 cut(s)	206, 474
BsrFI	RCCGGY	1 cut(s)	4
BssAI	RCCGGY	1 cut(s)	4
BssECI	CCNNGG	1 cut(s)	30
BssMI	GATC	7 cut(s)	43, 103, 219, 358, 462, 554, 620
Bst2UI	CCWGG	1 cut(s)	922
Bst4CI	ACNGT	4 cut(s)	41, 177, 241, 607
Bst6I	CTCTTC	3 cut(s)	90, 411, 435
BstC8I	GCNNGC	6 cut(s)	6, 254, 319, 451, 849, 869
BstDEI	CTNAG	1 cut(s)	936
BstDSI	CCRYGG	1 cut(s)	30
BstFNI	CGCG	2 cut(s)	32, 63
BstHHI	GCGC	1 cut(s)	687
BstKTI	GATC	7 cut(s)	46, 106, 222, 361, 465, 557, 623
BstMBI	GATC	7 cut(s)	43, 103, 219, 358, 462, 554, 620
BstMCI	CGRYCG	1 cut(s)	106
BstMWI	GCNNNNNNNGC	6 cut(s)	69, 258, 318, 380, 476, 539
BstNI	CCWGG	1 cut(s)	922
BstNSI	RCATGY	2 cut(s)	321, 871
BstSCI	CCNGG	1 cut(s)	920
BstSFI	CTRYAG	2 cut(s)	265, 537
BstUI	CGCG	2 cut(s)	32, 63
BstV1I	GCAGC	3 cut(s)	395, 551, 554
BstX2I	RGATCY	2 cut(s)	462, 620
BstYI	RGATCY	2 cut(s)	462, 620
BsuRI	GGCC	2 cut(s)	29, 72
BtgI	CCRYGG	1 cut(s)	30
BtsI	GCAGTG	1 cut(s)	534
BtsIMutI	CAGTG	2 cut(s)	246, 534
Cac8I	GCNNGC	6 cut(s)	6, 254, 319, 451, 849, 869
CaiI	CAGNNNCTG	1 cut(s)	755
CciI	TCATGA	1 cut(s)	433
CfoI	GCGC	1 cut(s)	687
Cfr10I	RCCGGY	1 cut(s)	4
Cfr42I	CCGCGG	1 cut(s)	33
Csp6I	GTAC	2 cut(s)	324, 367
CviAII	CATG	5 cut(s)	289, 318, 434, 852, 868
CviQI	GTAC	2 cut(s)	324, 367
DdeI	CTNAG	1 cut(s)	936
DpnI	GATC	7 cut(s)	45, 105, 221, 360, 464, 556, 622
DpnII	GATC	7 cut(s)	43, 103, 219, 358, 462, 554, 620
DraIII	CACNNNGTG	1 cut(s)	332
Eam1104I	CTCTTC	3 cut(s)	90, 411, 435
EarI	CTCTTC	3 cut(s)	90, 411, 435
Ecl136II	GAGCTC	1 cut(s)	728
Eco24I	GRGCYC	2 cut(s)	119, 730
Eco53kI	GAGCTC	1 cut(s)	728
Eco88I	CYCGRG	1 cut(s)	119
EcoICRI	GAGCTC	1 cut(s)	728
EcoRII	CCWGG	1 cut(s)	920
EcoT22I	ATGCAT	1 cut(s)	278
EcoT38I	GRGCYC	2 cut(s)	119, 730
FaeI	CATG	5 cut(s)	292, 321, 437, 855, 871
FalI	AAGNNNNNCTT	1 cut(s)	37
FatI	CATG	5 cut(s)	288, 317, 433, 851, 867
Fnu4HI	GCNGC	6 cut(s)	30, 83, 293, 384, 540, 543
FriOI	GRGCYC	2 cut(s)	119, 730
Fsp4HI	GCNGC	6 cut(s)	30, 83, 293, 384, 540, 543
FspBI	CTAG	3 cut(s)	215, 336, 897
GlaI	GCGC	1 cut(s)	686
GluI	GCNGC	6 cut(s)	30, 83, 293, 384, 540, 543
HaeIII	GGCC	2 cut(s)	29, 72
HapII	CCGG	4 cut(s)	5, 112, 395, 955
HhaI	GCGC	1 cut(s)	687
Hin1II	CATG	5 cut(s)	292, 321, 437, 855, 871
Hin6I	GCGC	1 cut(s)	685
HinP1I	GCGC	1 cut(s)	685
HindIII	AAGCTT	1 cut(s)	468
HinfI	GANTC	4 cut(s)	98, 592, 665, 874
HpaII	CCGG	4 cut(s)	5, 112, 395, 955
HphI	GGTGA	4 cut(s)	53, 689, 782, 805
Hpy166II	GTNNAC	2 cut(s)	326, 796
Hpy188I	TCNGA	8 cut(s)	103, 108, 181, 189, 363, 502, 625, 964
Hpy188III	TCNNGA	4 cut(s)	395, 434, 839, 955
Hpy8I	GTNNAC	2 cut(s)	326, 796
Hpy99I	CGWCG	2 cut(s)	345, 495
HpyAV	CCTTC	4 cut(s)	133, 439, 582, 753
HpyCH4III	ACNGT	4 cut(s)	41, 177, 241, 607
HpyCH4IV	ACGT	1 cut(s)	162
HpyF10VI	GCNNNNNNNGC	6 cut(s)	69, 258, 318, 380, 476, 539
HpyF3I	CTNAG	1 cut(s)	936
HpySE526I	ACGT	1 cut(s)	162
Hsp92II	CATG	5 cut(s)	292, 321, 437, 855, 871
HspAI	GCGC	1 cut(s)	685
Kpn2I	TCCGGA	2 cut(s)	394, 954
KroI	GCCGGC	1 cut(s)	4
KroNI	GCCGGC	1 cut(s)	6
KspI	CCGCGG	1 cut(s)	33
Kzo9I	GATC	7 cut(s)	43, 103, 219, 358, 462, 554, 620
LmnI	GCTCC	4 cut(s)	79, 108, 114, 725
Lsp1109I	GCAGC	3 cut(s)	395, 551, 554
LweI	GCATC	2 cut(s)	361, 824
MaeI	CTAG	3 cut(s)	215, 336, 897
MaeII	ACGT	1 cut(s)	162
MaeIII	GTNAC	1 cut(s)	563
MalI	GATC	7 cut(s)	45, 105, 221, 360, 464, 556, 622
MboI	GATC	7 cut(s)	43, 103, 219, 358, 462, 554, 620
MboII	GAAGA	5 cut(s)	107, 428, 449, 452, 663
MflI	RGATCY	2 cut(s)	462, 620
MhlI	GDGCHC	2 cut(s)	119, 730
MluCI	AATT	5 cut(s)	183, 378, 422, 574, 612
MlyI	GAGTC	2 cut(s)	107, 883
Mph1103I	ATGCAT	1 cut(s)	278
MroI	TCCGGA	2 cut(s)	394, 954
MroNI	GCCGGC	1 cut(s)	4
MroXI	GAANNNNTTC	1 cut(s)	664
MseI	TTAA	1 cut(s)	377
MspA1I	CMGCKG	1 cut(s)	32
MspI	CCGG	4 cut(s)	5, 112, 395, 955
MspR9I	CCNGG	1 cut(s)	922
Mva1269I	GAATGC	5 cut(s)	254, 278, 314, 766, 922
MvaI	CCWGG	1 cut(s)	922
MvnI	CGCG	2 cut(s)	32, 63
MwoI	GCNNNNNNNGC	6 cut(s)	69, 258, 318, 380, 476, 539
NaeI	GCCGGC	1 cut(s)	6
NdeII	GATC	7 cut(s)	43, 103, 219, 358, 462, 554, 620
NgoMIV	GCCGGC	1 cut(s)	4
NlaIII	CATG	5 cut(s)	292, 321, 437, 855, 871
NlaIV	GGNNCC	6 cut(s)	81, 110, 116, 622, 904, 926
NmeAIII	GCCGAG	1 cut(s)	150
NsiI	ATGCAT	1 cut(s)	278
NspI	RCATGY	2 cut(s)	321, 871
PaeI	GCATGC	2 cut(s)	321, 871
PagI	TCATGA	1 cut(s)	433
PcsI	WCGNNNNNNNCGW	1 cut(s)	141
PctI	GAATGC	5 cut(s)	254, 278, 314, 766, 922
PdiI	GCCGGC	1 cut(s)	6
PdmI	GAANNNNTTC	1 cut(s)	664
PfeI	GAWTC	2 cut(s)	592, 665
PflMI	CCANNNNNTGG	1 cut(s)	717
PkrI	GCNGC	6 cut(s)	31, 84, 294, 385, 541, 544
Ple19I	CGATCG	1 cut(s)	106
PleI	GAGTC	2 cut(s)	106, 882
PpsI	GAGTC	2 cut(s)	106, 882
Psp124BI	GAGCTC	1 cut(s)	730
Psp6I	CCWGG	1 cut(s)	920
PspGI	CCWGG	1 cut(s)	920
PspN4I	GGNNCC	6 cut(s)	81, 110, 116, 622, 904, 926
PstI	CTGCAG	1 cut(s)	541
PstNI	CAGNNNCTG	1 cut(s)	755
PsuI	RGATCY	2 cut(s)	462, 620
PvuI	CGATCG	1 cut(s)	106
RsaI	GTAC	2 cut(s)	325, 368
RsaNI	GTAC	2 cut(s)	324, 367
SacI	GAGCTC	1 cut(s)	730
SacII	CCGCGG	1 cut(s)	33
SaqAI	TTAA	1 cut(s)	377
SatI	GCNGC	6 cut(s)	30, 83, 293, 384, 540, 543
Sau3AI	GATC	7 cut(s)	43, 103, 219, 358, 462, 554, 620
SchI	GAGTC	2 cut(s)	107, 883
ScrFI	CCNGG	1 cut(s)	922
SduI	GDGCHC	2 cut(s)	119, 730
SetI	ASST	8 cut(s)	165, 388, 430, 472, 730, 795, 865, 970
SfaNI	GCATC	2 cut(s)	361, 824
SfcI	CTRYAG	2 cut(s)	265, 537
Sfr303I	CCGCGG	1 cut(s)	33
SgrBI	CCGCGG	1 cut(s)	33
SmlI	CTYRAG	1 cut(s)	74
SmoI	CTYRAG	1 cut(s)	74
SphI	GCATGC	2 cut(s)	321, 871
Sse9I	AATT	5 cut(s)	183, 378, 422, 574, 612
SsiI	CCGC	8 cut(s)	30, 32, 61, 83, 259, 292, 871, 928
SspMI	CTAG	3 cut(s)	215, 336, 897
SstI	GAGCTC	1 cut(s)	730
StyD4I	CCNGG	1 cut(s)	920
TaaI	ACNGT	4 cut(s)	41, 177, 241, 607
TaiI	ACGT	1 cut(s)	165
TaqI	TCGA	3 cut(s)	24, 490, 730
TasI	AATT	5 cut(s)	183, 378, 422, 574, 612
TauI	GCSGC	3 cut(s)	32, 85, 295
TfiI	GAWTC	2 cut(s)	592, 665
Tru1I	TTAA	1 cut(s)	377
Tru9I	TTAA	1 cut(s)	377
TscAI	CASTG	2 cut(s)	246, 541
TseI	GCWGC	3 cut(s)	383, 539, 542
TspDTI	ATGAA	6 cut(s)	321, 422, 450, 657, 735, 792
TspGWI	ACGGA	1 cut(s)	105
TspRI	CASTG	2 cut(s)	246, 541
Van91I	CCANNNNNTGG	1 cut(s)	717
XapI	RAATTY	3 cut(s)	183, 574, 612
XceI	RCATGY	2 cut(s)	321, 871
XmnI	GAANNNNTTC	1 cut(s)	664
XspI	CTAG	3 cut(s)	215, 336, 897
Zsp2I	ATGCAT	1 cut(s)	278

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.