Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0003611

Physical Location & Seq

Genomic Coordinates Forward (+)

82036986 .. 82059016

Gene Structure 22031 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG477300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGGGTAGGGGGAAGATTGAGATCAAGAAGATTGAGAACACCAACAGCAGACAAGTCACATTCTCAAAGAGGCGTGCTGGATTACTCAAGAAAGCTCAGGAATTGGCTATTCTCTGCGATGCTGAGGTTGTTGTCATCGTCTTCTCTAACACTGGCAAGCTTTTTGAGTTTTCCAGTGCTGGATACAGCAAGTGTTATGAGTCTTCAGAGACCGCTCTGGTAGAATCAAGGGCAGAGACTACTAAGATACCTGAGGAAAAGAATCAAAATATAGAAGCAATAGTGCAAGAAGCTGCTCAAGGAACCATATCTAGCAGTGACGCTCTTAATCTACGATTAGAGAATCAGGTTAACAGTGGTACATCATCACAATCACAAGGAGGTTCACTTCCTATCCCTACTGCATTGAAGAACTTTTCAATGTCCCAGAAGGAAAAAACTCTTGATGAATTTGTACGGGATAAATGGCTTTCCTTCACTACTGAGGGTCATGTTGGACTTGGTGTCAGATCCTTCCTTGATCTGCGAAGTTGGTTTCGCAATAATGATGTTCCTTCATGCGAAGTGTGCAACGAAGCTGGCGTGAAGGCAGTGTTATGCCAGAAAGAGGGTTGTTCGGTTCGAATTCATCAGTACTGCCTAGGAAAACTGTTTGCTAAGAAAAAGGGTGAAAGAGTTTGTCCAAGTTGTGGTACTCAATGGCAATATACAGGACCAAAAGCATAA

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

SMC_Nse1 zf-RING-like

Protein Analysis

241

Amino Acids

26.59

Weight (kDa)

8.81

Isoelectric Point (pI)

43.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	10 - 57	5.8e-26	SRF-type transcription factor (DNA-binding and dimerisation domain)
SMC_Nse1	PF07574	94 - 175	5.7e-12	Nse1 non-SMC component of SMC5-6 complex
zf-RING-like	PF08746	187 - 230	3e-10	RING-like domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0003611)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G21140
fragaria_vesca	FvH4_3g30540 FvH4_3g30540 FvH4_3g30540 FvH4_3g30540
malus_domestica	MD11G1180700.v1.1
prunus_persica	Prupe.6G153500_v2.0.a1
pyrus_communis	pycom11g15590
rosa_chinensis	RchiOBHm_Chr5g0056151 RchiOBHm_Chr5g0056531 RchiOBHm_Chr6g0256561
rosa_laevigata	RLG00000035103
rosa_multiflora	Rmu_sc0000366.1_g000003 Rmu_sc0000366.1_g000039 Rmu_sc0001787.1_g000001 Rmu_sc0002204.1_g000004 Rmu_sc0004101.1_g000056 Rmu_sc0004174.1_g000007 Rmu_sc0004368.1_g000013 Rmu_sc0027729.1_g000001
rosa_roxburghii	Rroxscaffold_1G00023800
rosa_rugosa	Rorug05G0300600
rosa_samantha	Rh1BG210900 Rh1DG237500 Rh5AG370900 Rh5AG477300 Rh5BG382100 Rh5BG497800 Rh5CG324300 Rh5CG405300 Rh5DG395000
rosa_wichuraiana	Rw0G022130 Rw1G009200 Rw2G024960 Rw5G034750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	689
AccBSI	CCGCTC	1 cut(s)	215
AciI	CCGC	1 cut(s)	213
AclWI	GGATC	1 cut(s)	504
AcsI	RAATTY	2 cut(s)	449, 624
AcuI	CTGAAG	1 cut(s)	189
AfaI	GTAC	4 cut(s)	361, 456, 635, 694
AfiI	CCNNNNNNNGG	2 cut(s)	607, 689
AgsI	TTSAA	2 cut(s)	409, 420
AhdI	GACNNNNNGTC	1 cut(s)	503
AluBI	AGCT	4 cut(s)	95, 160, 293, 578
AluI	AGCT	4 cut(s)	95, 160, 293, 578
Alw26I	GTCTC	2 cut(s)	203, 230
AlwI	GGATC	1 cut(s)	504
ApeKI	GCWGC	1 cut(s)	293
ApoI	RAATTY	2 cut(s)	449, 624
AspA2I	CCTAGG	1 cut(s)	640
AspS9I	GGNCC	1 cut(s)	713
AsuHPI	GGTGA	1 cut(s)	680
AsuII	TTCGAA	1 cut(s)	622
AvaII	GGWCC	1 cut(s)	713
AvrII	CCTAGG	1 cut(s)	640
AxyI	CCTNAGG	1 cut(s)	252
BbsI	GAAGAC	2 cut(s)	133, 195
BbvCI	CCTCAGC	1 cut(s)	123
BbvI	GCAGC	1 cut(s)	280
BciVI	GTATCC	1 cut(s)	176
BcoDI	GTCTC	2 cut(s)	203, 230
BfaI	CTAG	2 cut(s)	312, 641
BfuI	GTATCC	1 cut(s)	176
BisI	GCNGC	1 cut(s)	294
BlnI	CCTAGG	1 cut(s)	640
BlsI	GCNGC	1 cut(s)	295
BmcAI	AGTACT	1 cut(s)	635
Bme18I	GGWCC	1 cut(s)	713
BmeRI	GACNNNNNGTC	1 cut(s)	503
BmgT120I	GGNCC	1 cut(s)	713
BmiI	GGNNCC	1 cut(s)	304
BmsI	GCATC	1 cut(s)	109
BpiI	GAAGAC	2 cut(s)	133, 195
Bpu10I	CCTNAGC	2 cut(s)	96, 123
Bpu14I	TTCGAA	1 cut(s)	622
BpuEI	CTTGAG	2 cut(s)	71, 282
BsaBI	GATNNNNATC	1 cut(s)	20
BsaI	GGTCTC	1 cut(s)	203
BsaJI	CCNNGG	1 cut(s)	640
Bsc4I	CCNNNNNNNGG	2 cut(s)	607, 689
Bse1I	ACTGG	2 cut(s)	157, 174
Bse21I	CCTNAGG	1 cut(s)	252
Bse8I	GATNNNNATC	1 cut(s)	20
BseDI	CCNNGG	1 cut(s)	640
BseJI	GATNNNNATC	1 cut(s)	20
BseLI	CCNNNNNNNGG	2 cut(s)	607, 689
BseMII	CTCAG	4 cut(s)	110, 114, 243, 474
BseNI	ACTGG	2 cut(s)	157, 174
BseXI	GCAGC	1 cut(s)	280
BslFI	GGGAC	1 cut(s)	409
BslI	CCNNNNNNNGG	2 cut(s)	607, 689
BsmAI	GTCTC	2 cut(s)	203, 230
BsmFI	GGGAC	1 cut(s)	409
Bso31I	GGTCTC	1 cut(s)	203
Bsp119I	TTCGAA	1 cut(s)	622
Bsp143I	GATC	3 cut(s)	21, 509, 520
BspACI	CCGC	1 cut(s)	213
BspCNI	CTCAG	4 cut(s)	109, 115, 244, 475
BspLI	GGNNCC	1 cut(s)	304
BspPI	GGATC	1 cut(s)	504
BspT104I	TTCGAA	1 cut(s)	622
BspTNI	GGTCTC	1 cut(s)	203
BsrBI	CCGCTC	1 cut(s)	215
BsrI	ACTGG	2 cut(s)	157, 174
BssECI	CCNNGG	1 cut(s)	640
BssMI	GATC	3 cut(s)	21, 509, 520
BssT1I	CCWWGG	1 cut(s)	640
Bst4CI	ACNGT	2 cut(s)	356, 651
BstBI	TTCGAA	1 cut(s)	622
BstC8I	GCNNGC	3 cut(s)	75, 158, 580
BstDEI	CTNAG	6 cut(s)	96, 123, 243, 252, 483, 657
BstKTI	GATC	3 cut(s)	24, 512, 523
BstMAI	GTCTC	2 cut(s)	203, 230
BstMBI	GATC	3 cut(s)	21, 509, 520
BstMWI	GCNNNNNNNGC	1 cut(s)	567
BstV1I	GCAGC	1 cut(s)	280
BstV2I	GAAGAC	2 cut(s)	133, 195
BstX2I	RGATCY	1 cut(s)	509
BstYI	RGATCY	1 cut(s)	509
Bsu36I	CCTNAGG	1 cut(s)	252
BsuI	GTATCC	1 cut(s)	176
BtgZI	GCGATG	1 cut(s)	132
BtsI	GCAGTG	2 cut(s)	322, 597
BtsIMutI	CAGTG	5 cut(s)	150, 181, 322, 361, 597
Cac8I	GCNNGC	3 cut(s)	75, 158, 580
Cfr13I	GGNCC	1 cut(s)	713
CseI	GACGC	1 cut(s)	329
Csp6I	GTAC	4 cut(s)	360, 455, 634, 693
CviAII	CATG	2 cut(s)	491, 558
CviJI	RGCY	6 cut(s)	95, 107, 160, 293, 469, 578
CviKI_1	RGCY	6 cut(s)	95, 107, 160, 293, 469, 578
CviQI	GTAC	4 cut(s)	360, 455, 634, 693
DdeI	CTNAG	6 cut(s)	96, 123, 243, 252, 483, 657
DpnI	GATC	3 cut(s)	23, 511, 522
DpnII	GATC	3 cut(s)	21, 509, 520
DriI	GACNNNNNGTC	1 cut(s)	503
Eam1105I	GACNNNNNGTC	1 cut(s)	503
Eco130I	CCWWGG	1 cut(s)	640
Eco31I	GGTCTC	1 cut(s)	203
Eco47I	GGWCC	1 cut(s)	713
Eco57I	CTGAAG	1 cut(s)	189
Eco81I	CCTNAGG	1 cut(s)	252
EcoRI	GAATTC	1 cut(s)	624
EcoT14I	CCWWGG	1 cut(s)	640
ErhI	CCWWGG	1 cut(s)	640
FaeI	CATG	2 cut(s)	494, 561
FaiI	YATR	8 cut(s)	198, 272, 308, 492, 559, 598, 708, 724
FaqI	GGGAC	1 cut(s)	409
FatI	CATG	2 cut(s)	490, 557
Fnu4HI	GCNGC	1 cut(s)	294
Fsp4HI	GCNGC	1 cut(s)	294
FspBI	CTAG	2 cut(s)	312, 641
GluI	GCNGC	1 cut(s)	294
HgaI	GACGC	1 cut(s)	329
Hin1II	CATG	2 cut(s)	494, 561
HincII	GTYRAC	1 cut(s)	352
HindII	GTYRAC	1 cut(s)	352
HindIII	AAGCTT	1 cut(s)	158
HinfI	GANTC	4 cut(s)	200, 224, 262, 343
HpaI	GTTAAC	1 cut(s)	352
HphI	GGTGA	1 cut(s)	680
Hpy166II	GTNNAC	2 cut(s)	352, 386
Hpy188I	TCNGA	2 cut(s)	208, 509
Hpy188III	TCNNGA	4 cut(s)	25, 88, 98, 443
Hpy8I	GTNNAC	2 cut(s)	352, 386
HpyAV	CCTTC	5 cut(s)	424, 484, 523, 564, 580
HpyCH4III	ACNGT	2 cut(s)	356, 651
HpyCH4V	TGCA	3 cut(s)	286, 404, 570
HpyF10VI	GCNNNNNNNGC	1 cut(s)	567
HpyF3I	CTNAG	6 cut(s)	96, 123, 243, 252, 483, 657
Hsp92II	CATG	2 cut(s)	494, 561
KspAI	GTTAAC	1 cut(s)	352
Kzo9I	GATC	3 cut(s)	21, 509, 520
Lsp1109I	GCAGC	1 cut(s)	280
LweI	GCATC	1 cut(s)	109
MaeI	CTAG	2 cut(s)	312, 641
MaeIII	GTNAC	2 cut(s)	55, 317
MalI	GATC	3 cut(s)	23, 511, 522
MbiI	CCGCTC	1 cut(s)	215
MboI	GATC	3 cut(s)	21, 509, 520
MboII	GAAGA	5 cut(s)	25, 40, 133, 195, 421
MflI	RGATCY	1 cut(s)	509
MluCI	AATT	3 cut(s)	101, 449, 624
MlyI	GAGTC	1 cut(s)	209
MmeI	TCCRAC	1 cut(s)	475
MnlI	CCTC	6 cut(s)	63, 118, 247, 374, 478, 601
MseI	TTAA	2 cut(s)	327, 351
MwoI	GCNNNNNNNGC	1 cut(s)	567
NdeII	GATC	3 cut(s)	21, 509, 520
NlaIII	CATG	2 cut(s)	494, 561
NlaIV	GGNNCC	1 cut(s)	304
NmuCI	GTSAC	2 cut(s)	55, 317
NspV	TTCGAA	1 cut(s)	622
PcsI	WCGNNNNNNNCGW	1 cut(s)	579
PfeI	GAWTC	3 cut(s)	224, 262, 343
PflMI	CCANNNNNTGG	1 cut(s)	689
PkrI	GCNGC	1 cut(s)	295
PleI	GAGTC	1 cut(s)	208
PpsI	GAGTC	1 cut(s)	208
PspN4I	GGNNCC	1 cut(s)	304
PspPI	GGNCC	1 cut(s)	713
PsuI	RGATCY	1 cut(s)	509
RsaI	GTAC	4 cut(s)	361, 456, 635, 694
RsaNI	GTAC	4 cut(s)	360, 455, 634, 693
SaqAI	TTAA	2 cut(s)	327, 351
SatI	GCNGC	1 cut(s)	294
Sau3AI	GATC	3 cut(s)	21, 509, 520
Sau96I	GGNCC	1 cut(s)	713
ScaI	AGTACT	1 cut(s)	635
SchI	GAGTC	1 cut(s)	209
SetI	ASST	8 cut(s)	97, 129, 162, 253, 295, 351, 385, 580
SfaNI	GCATC	1 cut(s)	109
SfuI	TTCGAA	1 cut(s)	622
SinI	GGWCC	1 cut(s)	713
SmlI	CTYRAG	2 cut(s)	86, 297
SmoI	CTYRAG	2 cut(s)	86, 297
Sse9I	AATT	3 cut(s)	101, 449, 624
SsiI	CCGC	1 cut(s)	213
SspMI	CTAG	2 cut(s)	312, 641
StyI	CCWWGG	1 cut(s)	640
TaaI	ACNGT	2 cut(s)	356, 651
TaqI	TCGA	1 cut(s)	622
TasI	AATT	3 cut(s)	101, 449, 624
TatI	WGTACW	1 cut(s)	633
TfiI	GAWTC	3 cut(s)	224, 262, 343
Tru1I	TTAA	2 cut(s)	327, 351
Tru9I	TTAA	2 cut(s)	327, 351
TscAI	CASTG	5 cut(s)	157, 181, 322, 361, 597
TseFI	GTSAC	2 cut(s)	55, 317
TseI	GCWGC	1 cut(s)	293
Tsp45I	GTSAC	2 cut(s)	55, 317
TspDTI	ATGAA	3 cut(s)	462, 546, 617
TspRI	CASTG	5 cut(s)	157, 181, 322, 361, 597
Van91I	CCANNNNNTGG	1 cut(s)	689
VpaK11BI	GGWCC	1 cut(s)	713
XapI	RAATTY	2 cut(s)	449, 624
XmaJI	CCTAGG	1 cut(s)	640
XspI	CTAG	2 cut(s)	312, 641
ZrmI	AGTACT	1 cut(s)	635

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