Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0004149

Physical Location & Seq

Genomic Coordinates Forward (+)

42661300 .. 42703833

Gene Structure 42534 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG219300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGAAGAAGTATGCTGATAATTTACTTCAAGTTATGGAAGGTATTAGTGCACGACTAACACAACTTGAGAGCAGAACCCGCCACCTTGAGAATTCTGTTGATGATTTGAAGGTATCTGTTGGAAACAATCATGGAAATGCTGATGGAAAGATGAGACAAATGGAGAATATTCTTAGAGATGGAGAGTGTTGTACTAATGGTGGTGCAGCTGTGGTCATGGGACCCATTAGTCTTTCGGTTCTTGAAGCAATAGTGCAAGAAGCTGCTCAAGGAACCATATCTAGCAGTGACGCTCTTAATCTACGATTAGAGAATCAGGTTAACAGTGGTACATCATCACAATCACAAGGAGGTTCACTTCCTATCCCTACTGCATTGAAGAACTTTTCAATGTCCCAGAAGGAAAAAACTCTTGATGAATTTGTACGGGATAAATGGCTTTCCTTCACTGCTGAGGGTCATGTTGGACTTGGTGTCAGATCCTTCCTTGATCTGCGAAGTTGGTTTCGCAATAATGATGTTCCTTTATGCGAAGTGTGCAACGAAGCTGGCGTGAAGGCAGTGTTATGCCAAAAAGAGGGTTGTTTGGTTCGAATTCATCAGTACTGCCTAGGAAAACTGTTTGCTAAGAAAAAGGCACCCTAG

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

214

Amino Acids

23.37

Weight (kDa)

7.58

Isoelectric Point (pI)

35.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMC_Nse1	PF07574	82 - 165	3.2e-12	Nse1 non-SMC component of SMC5-6 complex
zf-RING-like	PF08746	177 - 212	8.7e-09	RING-like domain

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

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004149)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G01560 AT3G01560 AT5G14540
fragaria_vesca	FvH4_4g26262 FvH4_6g28150
malus_domestica	MD09G1028500.v1.1 MD17G1030000.v1.1
prunus_persica	Prupe.1G550900_v2.0.a1 Prupe.3G290000_v2.0.a1
pyrus_communis	pycom111g02250 pycom17g02740
rosa_chinensis	RchiOBHm_Chr2g0132111 RchiOBHm_Chr5g0029881
rosa_laevigata	RLG00000019227
rosa_multiflora	Rmu_sc0004598.1_g000012 Rmu_ssc0000143.1_g000007
rosa_roxburghii	Rroxscaffold_2G00112390
rosa_rugosa	Rorug02G0169700 Rorug02G0302300 Rorug02G0392200 Rorug05G0511500
rosa_samantha	Rh1BG190500 Rh1DG219300 Rh2AG355300 Rh2BG361500 Rh2CG338900 Rh2DG378100 Rh4DG188100 Rh5BG551200 Rh5CG574100 Rh5DG211600 Rh7BG454200
rosa_wichuraiana	Rw2G028850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	228
AccB1I	GGYRCC	1 cut(s)	637
AciI	CCGC	1 cut(s)	79
AclWI	GGATC	1 cut(s)	474
AcsI	RAATTY	3 cut(s)	91, 419, 594
AfaI	GTAC	4 cut(s)	193, 331, 426, 605
AfiI	CCNNNNNNNGG	1 cut(s)	577
AgsI	TTSAA	5 cut(s)	29, 109, 245, 379, 390
AhdI	GACNNNNNGTC	1 cut(s)	473
AluBI	AGCT	3 cut(s)	209, 263, 548
AluI	AGCT	3 cut(s)	209, 263, 548
Alw21I	GWGCWC	1 cut(s)	52
Alw26I	GTCTC	1 cut(s)	148
Alw44I	GTGCAC	1 cut(s)	48
AlwI	GGATC	1 cut(s)	474
ApaLI	GTGCAC	1 cut(s)	48
ApeKI	GCWGC	2 cut(s)	206, 263
ApoI	RAATTY	3 cut(s)	91, 419, 594
AspA2I	CCTAGG	1 cut(s)	610
AspS9I	GGNCC	1 cut(s)	221
AsuII	TTCGAA	1 cut(s)	592
AvaII	GGWCC	1 cut(s)	221
AvrII	CCTAGG	1 cut(s)	610
BaeGI	GKGCMC	1 cut(s)	52
BanI	GGYRCC	1 cut(s)	637
Bbv12I	GWGCWC	1 cut(s)	52
BbvCI	CCTCAGC	1 cut(s)	453
BbvI	GCAGC	2 cut(s)	218, 250
BccI	CCATC	2 cut(s)	137, 173
BcoDI	GTCTC	1 cut(s)	148
BfaI	CTAG	3 cut(s)	282, 611, 643
BisI	GCNGC	2 cut(s)	207, 264
BlnI	CCTAGG	1 cut(s)	610
BlsI	GCNGC	2 cut(s)	208, 265
BmcAI	AGTACT	1 cut(s)	605
Bme18I	GGWCC	1 cut(s)	221
BmeRI	GACNNNNNGTC	1 cut(s)	473
BmgT120I	GGNCC	1 cut(s)	221
BmiI	GGNNCC	4 cut(s)	222, 223, 274, 639
Bpu10I	CCTNAGC	1 cut(s)	453
Bpu14I	TTCGAA	1 cut(s)	592
BpuEI	CTTGAG	3 cut(s)	86, 107, 252
BsaJI	CCNNGG	1 cut(s)	610
Bsc4I	CCNNNNNNNGG	1 cut(s)	577
BseDI	CCNNGG	1 cut(s)	610
BseLI	CCNNNNNNNGG	1 cut(s)	577
BseMII	CTCAG	1 cut(s)	444
BseSI	GKGCMC	1 cut(s)	52
BseXI	GCAGC	2 cut(s)	218, 250
BsgI	GTGCAG	1 cut(s)	225
BshNI	GGYRCC	1 cut(s)	637
BsiHKAI	GWGCWC	1 cut(s)	52
BslFI	GGGAC	2 cut(s)	234, 379
BslI	CCNNNNNNNGG	1 cut(s)	577
BsmAI	GTCTC	1 cut(s)	148
BsmFI	GGGAC	2 cut(s)	234, 379
Bsp119I	TTCGAA	1 cut(s)	592
Bsp1286I	GDGCHC	1 cut(s)	52
Bsp143I	GATC	2 cut(s)	479, 490
BspACI	CCGC	1 cut(s)	79
BspCNI	CTCAG	1 cut(s)	445
BspLI	GGNNCC	4 cut(s)	222, 223, 274, 639
BspPI	GGATC	1 cut(s)	474
BspT104I	TTCGAA	1 cut(s)	592
BspT107I	GGYRCC	1 cut(s)	637
BssECI	CCNNGG	1 cut(s)	610
BssMI	GATC	2 cut(s)	479, 490
BssT1I	CCWWGG	1 cut(s)	610
Bst4CI	ACNGT	2 cut(s)	326, 621
BstBI	TTCGAA	1 cut(s)	592
BstC8I	GCNNGC	1 cut(s)	550
BstDEI	CTNAG	3 cut(s)	173, 453, 627
BstKTI	GATC	2 cut(s)	482, 493
BstMAI	GTCTC	1 cut(s)	148
BstMBI	GATC	2 cut(s)	479, 490
BstMWI	GCNNNNNNNGC	2 cut(s)	78, 537
BstSLI	GKGCMC	1 cut(s)	52
BstV1I	GCAGC	2 cut(s)	218, 250
BstX2I	RGATCY	1 cut(s)	479
BstYI	RGATCY	1 cut(s)	479
BtsI	GCAGTG	3 cut(s)	292, 447, 567
BtsIMutI	CAGTG	4 cut(s)	292, 331, 447, 567
Cac8I	GCNNGC	1 cut(s)	550
Cfr13I	GGNCC	1 cut(s)	221
CseI	GACGC	1 cut(s)	299
Csp6I	GTAC	4 cut(s)	192, 330, 425, 604
CviAII	CATG	3 cut(s)	131, 217, 461
CviJI	RGCY	4 cut(s)	209, 263, 439, 548
CviKI_1	RGCY	4 cut(s)	209, 263, 439, 548
CviQI	GTAC	4 cut(s)	192, 330, 425, 604
DdeI	CTNAG	3 cut(s)	173, 453, 627
DpnI	GATC	2 cut(s)	481, 492
DpnII	GATC	2 cut(s)	479, 490
DrdI	GACNNNNNNGTC	1 cut(s)	228
DriI	GACNNNNNGTC	1 cut(s)	473
DseDI	GACNNNNNNGTC	1 cut(s)	228
Eam1105I	GACNNNNNGTC	1 cut(s)	473
Eco130I	CCWWGG	1 cut(s)	610
Eco47I	GGWCC	1 cut(s)	221
EcoO109I	RGGNCCY	1 cut(s)	221
EcoRI	GAATTC	2 cut(s)	91, 594
EcoT14I	CCWWGG	1 cut(s)	610
ErhI	CCWWGG	1 cut(s)	610
FaeI	CATG	3 cut(s)	134, 220, 464
FaiI	YATR	8 cut(s)	12, 35, 132, 218, 278, 462, 529, 568
FaqI	GGGAC	2 cut(s)	234, 379
FatI	CATG	3 cut(s)	130, 216, 460
FauI	CCCGC	1 cut(s)	86
Fnu4HI	GCNGC	2 cut(s)	207, 264
Fsp4HI	GCNGC	2 cut(s)	207, 264
FspBI	CTAG	3 cut(s)	282, 611, 643
GluI	GCNGC	2 cut(s)	207, 264
HgaI	GACGC	1 cut(s)	299
Hin1II	CATG	3 cut(s)	134, 220, 464
HincII	GTYRAC	1 cut(s)	322
HindII	GTYRAC	1 cut(s)	322
HinfI	GANTC	1 cut(s)	313
HpaI	GTTAAC	1 cut(s)	322
Hpy166II	GTNNAC	3 cut(s)	50, 322, 356
Hpy188I	TCNGA	1 cut(s)	479
Hpy188III	TCNNGA	2 cut(s)	242, 413
Hpy8I	GTNNAC	3 cut(s)	50, 322, 356
HpyAV	CCTTC	6 cut(s)	32, 103, 394, 454, 493, 550
HpyCH4III	ACNGT	2 cut(s)	326, 621
HpyCH4V	TGCA	5 cut(s)	50, 206, 256, 374, 540
HpyF10VI	GCNNNNNNNGC	2 cut(s)	78, 537
HpyF3I	CTNAG	3 cut(s)	173, 453, 627
Hsp92II	CATG	3 cut(s)	134, 220, 464
KflI	GGGWCCC	1 cut(s)	221
KspAI	GTTAAC	1 cut(s)	322
Kzo9I	GATC	2 cut(s)	479, 490
LpnPI	CCDG	3 cut(s)	302, 410, 534
Lsp1109I	GCAGC	2 cut(s)	218, 250
MaeI	CTAG	3 cut(s)	282, 611, 643
MaeIII	GTNAC	1 cut(s)	287
MalI	GATC	2 cut(s)	481, 492
MboI	GATC	2 cut(s)	479, 490
MboII	GAAGA	2 cut(s)	16, 391
MflI	RGATCY	1 cut(s)	479
MhlI	GDGCHC	1 cut(s)	52
MluCI	AATT	4 cut(s)	19, 91, 419, 594
MmeI	TCCRAC	2 cut(s)	100, 445
MnlI	CCTC	3 cut(s)	344, 448, 571
MseI	TTAA	2 cut(s)	297, 321
MslI	CAYNNNNRTG	1 cut(s)	135
MspA1I	CMGCKG	1 cut(s)	209
MwoI	GCNNNNNNNGC	2 cut(s)	78, 537
NdeII	GATC	2 cut(s)	479, 490
NlaIII	CATG	3 cut(s)	134, 220, 464
NlaIV	GGNNCC	4 cut(s)	222, 223, 274, 639
NmuCI	GTSAC	1 cut(s)	287
NspV	TTCGAA	1 cut(s)	592
PcsI	WCGNNNNNNNCGW	1 cut(s)	549
PfeI	GAWTC	1 cut(s)	313
PkrI	GCNGC	2 cut(s)	208, 265
PpuMI	RGGWCCY	1 cut(s)	221
Psp5II	RGGWCCY	1 cut(s)	221
PspN4I	GGNNCC	4 cut(s)	222, 223, 274, 639
PspPI	GGNCC	1 cut(s)	221
PspPPI	RGGWCCY	1 cut(s)	221
PsuI	RGATCY	1 cut(s)	479
PvuII	CAGCTG	1 cut(s)	209
RsaI	GTAC	4 cut(s)	193, 331, 426, 605
RsaNI	GTAC	4 cut(s)	192, 330, 425, 604
RseI	CAYNNNNRTG	1 cut(s)	135
SaqAI	TTAA	2 cut(s)	297, 321
SatI	GCNGC	2 cut(s)	207, 264
Sau3AI	GATC	2 cut(s)	479, 490
Sau96I	GGNCC	1 cut(s)	221
ScaI	AGTACT	1 cut(s)	605
SduI	GDGCHC	1 cut(s)	52
SetI	ASST	8 cut(s)	43, 87, 114, 211, 265, 321, 355, 550
SfuI	TTCGAA	1 cut(s)	592
SinI	GGWCC	1 cut(s)	221
SmiMI	CAYNNNNRTG	1 cut(s)	135
SmlI	CTYRAG	3 cut(s)	65, 86, 267
SmoI	CTYRAG	3 cut(s)	65, 86, 267
Sse9I	AATT	4 cut(s)	19, 91, 419, 594
SsiI	CCGC	1 cut(s)	79
SspI	AATATT	1 cut(s)	169
SspMI	CTAG	3 cut(s)	282, 611, 643
StyI	CCWWGG	1 cut(s)	610
TaaI	ACNGT	2 cut(s)	326, 621
TaqI	TCGA	1 cut(s)	592
TasI	AATT	4 cut(s)	19, 91, 419, 594
TatI	WGTACW	2 cut(s)	191, 603
TfiI	GAWTC	1 cut(s)	313
Tru1I	TTAA	2 cut(s)	297, 321
Tru9I	TTAA	2 cut(s)	297, 321
TscAI	CASTG	4 cut(s)	292, 331, 454, 567
TseFI	GTSAC	1 cut(s)	287
TseI	GCWGC	2 cut(s)	206, 263
Tsp45I	GTSAC	1 cut(s)	287
TspDTI	ATGAA	3 cut(s)	17, 432, 587
TspRI	CASTG	4 cut(s)	292, 331, 454, 567
VneI	GTGCAC	1 cut(s)	48
VpaK11BI	GGWCC	1 cut(s)	221
XapI	RAATTY	3 cut(s)	91, 419, 594
XmaJI	CCTAGG	1 cut(s)	610
XspI	CTAG	3 cut(s)	282, 611, 643
ZrmI	AGTACT	1 cut(s)	605

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