Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0008857

Physical Location & Seq

Genomic Coordinates Forward (+)

1336321 .. 1340845

Gene Structure 4525 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG008200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 996 bp

ATGAGTGCTCATTGCAAGTCTCGTGATATGGTGTTAAACTTAATATTCTGTTATCTTTTTTACCTTCTATCTTGTTTGGTAATAACATGTCTAAAGACTATTCATTTACTTTGCAGGGATCTTCTTTACAAGCCAGTTGTATTAGGATGTGGCCACATTTCATGTTTCTGGTGCGTCTTCAATTCCATGAGTGCTTGTCATGAATCCAATTGTCCAGTTTGTCGATTCCCATATAATCATTTCCCTAGTATCTGTAATTTGCTGCATTTCATACTCCAAAAGTTGTATCCGACAGCATATCAGAGAAGGGAAAAGCAAGTGGGAGAAGAAGAGAAGGAAGCTGGCTTCTTTTCACCTGAAGTTCAAAATCCGCTAGCCGGACCACAGCCTACTGAGTCAAATATTCCTGGAAATGTTGCACATTCTCTCCCTTGTCCAAAGTCAAAGAACTCTGAAAGTTGTTCTTCTGGGGTAGGAGAATCTCCTTCACTTGTAAATTCACCAGAAATGTTAGACCATGAAGCTAATAGTTCAAGCGTTTCAATATCTTCAAAGAATGTTGAACGAACTGAAAATGCAGCCATCCAAGGGCATTGTTTGCATGGTAATGATCTTGAAAATGGAACTCACAAGGAGATTTCTGTTTCTGATCTACTATGTGCTGCATGCAAGAACTTGCTCTATCAACCTGTTGTTCTCAATTGTGGCCATGTATATTGTAAATCTTGTATAAGCATCCCAGAAGATGGAATTTCTAGGTGTCAGGTTTGTCAAAGCATGCATCCAAATGGATTTCCAAGTGTGTGCTTAGTTTTAGAGCATTTCTTGGAGGAGCAGTACCCTGAAGCTTATGCACAGAGACAAGCATCTTCACTAAAACAAGCTGACAGTCAGTGTGAGAATCTTAAAAATTTCATTACTTTGGTGCATTTATTTGATTTTTTTTTATACAACATTTGTATTGTTAGGGTTGATGGATTATATCTCAGTAATTAA

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

ZZ zf-C3HC4_3 zf-C3HC4_4 zf-RING_UBOX

Protein Analysis

331

Amino Acids

36.93

Weight (kDa)

5.99

Isoelectric Point (pI)

57.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4	PF00097	220 - 257	7.2e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	220 - 254	6.2e-06	RING-type zinc-finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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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: OG0008857)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g00570 FvH4_4g00570
malus_domestica	MD04G1005700.v1.1
prunus_persica	Prupe.1G006100_v2.0.a1 Prupe.1G006100_v2.0.a1 Prupe.1G006100_v2.0.a1 Prupe.1G006100_v2.0.a1
pyrus_communis	pycom420g00860
rosa_chinensis	RchiOBHm_Chr4g0386021
rosa_laevigata	RLG00000010180
rosa_multiflora	Rmu_sc0000472.1_g000019
rosa_roxburghii	Rroxscaffold_5G00333780 Rroxscaffold_5G00338450 Rroxscaffold_5G00338750
rosa_rugosa	Rorug03G0306300 Rorug03G0306400 Rorug03G0306400 Rorug03G0306500
rosa_samantha	Rh4AG010100 Rh4BG007100 Rh4CG010800 Rh4DG008200
rosa_wichuraiana	Rw4G000130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	746
AciI	CCGC	1 cut(s)	371
AclWI	GGATC	1 cut(s)	126
AcoI	YGGCCR	2 cut(s)	151, 706
AcsI	RAATTY	3 cut(s)	496, 750, 910
AcuI	CTGAAG	2 cut(s)	378, 864
AfaI	GTAC	1 cut(s)	839
AfiI	CCNNNNNNNGG	3 cut(s)	377, 588, 746
AflIII	ACRYGT	1 cut(s)	86
AgsI	TTSAA	7 cut(s)	181, 365, 534, 543, 552, 563, 617
AjnI	CCWGG	1 cut(s)	406
AluBI	AGCT	4 cut(s)	341, 524, 848, 884
AluI	AGCT	4 cut(s)	341, 524, 848, 884
Alw21I	GWGCWC	1 cut(s)	10
Alw26I	GTCTC	2 cut(s)	24, 853
AlwI	GGATC	1 cut(s)	126
AoxI	GGCC	2 cut(s)	151, 706
ApeKI	GCWGC	3 cut(s)	262, 578, 662
ApoI	RAATTY	3 cut(s)	496, 750, 910
AspS9I	GGNCC	1 cut(s)	380
AsuHPI	GGTGA	2 cut(s)	345, 492
AsuNHI	GCTAGC	1 cut(s)	373
AvaII	GGWCC	1 cut(s)	380
BalI	TGGCCA	2 cut(s)	153, 708
BauI	CACGAG	1 cut(s)	21
BbsI	GAAGAC	1 cut(s)	169
Bbv12I	GWGCWC	1 cut(s)	10
BbvI	GCAGC	3 cut(s)	249, 590, 649
BccI	CCATC	3 cut(s)	590, 740, 968
BciT130I	CCWGG	1 cut(s)	408
BciVI	GTATCC	1 cut(s)	297
BcoDI	GTCTC	2 cut(s)	24, 853
BfaI	CTAG	3 cut(s)	246, 374, 756
BfuI	GTATCC	1 cut(s)	297
BisI	GCNGC	3 cut(s)	263, 579, 663
BlsI	GCNGC	3 cut(s)	264, 580, 664
Bme1390I	CCNGG	1 cut(s)	408
Bme18I	GGWCC	1 cut(s)	380
BmgT120I	GGNCC	1 cut(s)	380
BmrFI	CCNGG	1 cut(s)	408
BmsI	GCATC	3 cut(s)	744, 790, 875
BmtI	GCTAGC	1 cut(s)	377
BpiI	GAAGAC	1 cut(s)	169
BsaJI	CCNNGG	1 cut(s)	586
BsaXI	ACNNNNNCTCC	4 cut(s)	411, 441, 821, 851
Bsc4I	CCNNNNNNNGG	3 cut(s)	377, 588, 746
Bse1I	ACTGG	2 cut(s)	134, 215
Bse3DI	GCAATG	1 cut(s)	10
BseBI	CCWGG	1 cut(s)	408
BseDI	CCNNGG	1 cut(s)	586
BseGI	GGATG	4 cut(s)	152, 582, 735, 781
BseLI	CCNNNNNNNGG	3 cut(s)	377, 588, 746
BseMI	GCAATG	1 cut(s)	10
BseMII	CTCAG	1 cut(s)	384
BseNI	ACTGG	2 cut(s)	134, 215
BseRI	GAGGAG	1 cut(s)	845
BseXI	GCAGC	3 cut(s)	249, 590, 649
BshFI	GGCC	2 cut(s)	153, 708
BsiHKAI	GWGCWC	1 cut(s)	10
BsiSI	CCGG	1 cut(s)	378
BslI	CCNNNNNNNGG	3 cut(s)	377, 588, 746
BsmAI	GTCTC	2 cut(s)	24, 853
BsnI	GGCC	2 cut(s)	153, 708
Bsp1286I	GDGCHC	1 cut(s)	10
Bsp143I	GATC	3 cut(s)	118, 610, 649
BspACI	CCGC	1 cut(s)	371
BspANI	GGCC	2 cut(s)	153, 708
BspCNI	CTCAG	1 cut(s)	385
BspHI	TCATGA	1 cut(s)	199
BspOI	GCTAGC	1 cut(s)	377
BspPI	GGATC	1 cut(s)	126
BsrDI	GCAATG	1 cut(s)	10
BsrI	ACTGG	2 cut(s)	134, 215
BssECI	CCNNGG	1 cut(s)	586
BssMI	GATC	3 cut(s)	118, 610, 649
BssSI	CACGAG	1 cut(s)	21
BssT1I	CCWWGG	1 cut(s)	586
Bst2BI	CACGAG	1 cut(s)	21
Bst2UI	CCWGG	1 cut(s)	408
Bst4CI	ACNGT	1 cut(s)	890
Bst6I	CTCTTC	1 cut(s)	324
BstAPI	GCANNNNNTGC	1 cut(s)	598
BstC8I	GCNNGC	4 cut(s)	343, 375, 667, 779
BstDEI	CTNAG	3 cut(s)	393, 808, 986
BstF5I	GGATG	4 cut(s)	152, 582, 735, 781
BstKTI	GATC	3 cut(s)	121, 613, 652
BstMAI	GTCTC	2 cut(s)	24, 853
BstMBI	GATC	3 cut(s)	118, 610, 649
BstMWI	GCNNNNNNNGC	1 cut(s)	598
BstNI	CCWGG	1 cut(s)	408
BstNSI	RCATGY	3 cut(s)	90, 669, 781
BstSCI	CCNGG	1 cut(s)	406
BstV1I	GCAGC	3 cut(s)	249, 590, 649
BstV2I	GAAGAC	1 cut(s)	169
BstX2I	RGATCY	1 cut(s)	118
BstYI	RGATCY	1 cut(s)	118
BsuI	GTATCC	1 cut(s)	297
BsuRI	GGCC	2 cut(s)	153, 708
BtsCI	GGATG	4 cut(s)	152, 582, 735, 781
BtsIMutI	CAGTG	1 cut(s)	899
Cac8I	GCNNGC	4 cut(s)	343, 375, 667, 779
CciI	TCATGA	1 cut(s)	199
Cfr13I	GGNCC	1 cut(s)	380
CseI	GACGC	1 cut(s)	163
Csp6I	GTAC	1 cut(s)	838
CviAII	CATG	9 cut(s)	87, 162, 187, 200, 518, 602, 666, 710, 778
CviQI	GTAC	1 cut(s)	838
DdeI	CTNAG	3 cut(s)	393, 808, 986
DpnI	GATC	3 cut(s)	120, 612, 651
DpnII	GATC	3 cut(s)	118, 610, 649
EaeI	YGGCCR	2 cut(s)	151, 706
Eam1104I	CTCTTC	1 cut(s)	324
EarI	CTCTTC	1 cut(s)	324
Eco130I	CCWWGG	1 cut(s)	586
Eco47I	GGWCC	1 cut(s)	380
Eco57I	CTGAAG	2 cut(s)	378, 864
EcoRII	CCWGG	1 cut(s)	406
EcoT14I	CCWWGG	1 cut(s)	586
EcoT22I	ATGCAT	1 cut(s)	783
ErhI	CCWWGG	1 cut(s)	586
FaeI	CATG	9 cut(s)	90, 165, 190, 203, 521, 605, 669, 713, 781
FalI	AAGNNNNNCTT	2 cut(s)	448, 480
FatI	CATG	9 cut(s)	86, 161, 186, 199, 517, 601, 665, 709, 777
Fnu4HI	GCNGC	3 cut(s)	263, 579, 663
FokI	GGATG	4 cut(s)	159, 569, 722, 768
Fsp4HI	GCNGC	3 cut(s)	263, 579, 663
FspBI	CTAG	3 cut(s)	246, 374, 756
GluI	GCNGC	3 cut(s)	263, 579, 663
HaeIII	GGCC	2 cut(s)	153, 708
HapII	CCGG	1 cut(s)	378
HgaI	GACGC	1 cut(s)	163
Hin1II	CATG	9 cut(s)	90, 165, 190, 203, 521, 605, 669, 713, 781
HindIII	AAGCTT	1 cut(s)	846
HinfI	GANTC	5 cut(s)	203, 225, 395, 479, 901
HpaII	CCGG	1 cut(s)	378
HphI	GGTGA	2 cut(s)	345, 492
Hpy188I	TCNGA	4 cut(s)	291, 303, 454, 649
Hpy188III	TCNNGA	3 cut(s)	23, 200, 614
HpyAV	CCTTC	4 cut(s)	74, 300, 328, 495
HpyCH4III	ACNGT	1 cut(s)	890
HpyF10VI	GCNNNNNNNGC	1 cut(s)	598
HpyF3I	CTNAG	3 cut(s)	393, 808, 986
Hsp92II	CATG	9 cut(s)	90, 165, 190, 203, 521, 605, 669, 713, 781
Kzo9I	GATC	3 cut(s)	118, 610, 649
LmnI	GCTCC	1 cut(s)	832
Lsp1109I	GCAGC	3 cut(s)	249, 590, 649
LweI	GCATC	3 cut(s)	744, 790, 875
MaeI	CTAG	3 cut(s)	246, 374, 756
MalI	GATC	3 cut(s)	120, 612, 651
MboI	GATC	3 cut(s)	118, 610, 649
MboII	GAAGA	8 cut(s)	113, 169, 338, 341, 456, 540, 755, 861
MfeI	CAATTG	2 cut(s)	208, 700
MflI	RGATCY	1 cut(s)	118
MhlI	GDGCHC	1 cut(s)	10
MlsI	TGGCCA	2 cut(s)	153, 708
MluCI	AATT	8 cut(s)	181, 208, 256, 496, 700, 750, 910, 991
MluNI	TGGCCA	2 cut(s)	153, 708
MlyI	GAGTC	1 cut(s)	404
MmeI	TCCRAC	1 cut(s)	314
MnlI	CCTC	1 cut(s)	823
Mox20I	TGGCCA	2 cut(s)	153, 708
Mph1103I	ATGCAT	1 cut(s)	783
MscI	TGGCCA	2 cut(s)	153, 708
MseI	TTAA	4 cut(s)	35, 41, 906, 994
MslI	CAYNNNNRTG	2 cut(s)	606, 786
Msp20I	TGGCCA	2 cut(s)	153, 708
MspI	CCGG	1 cut(s)	378
MspR9I	CCNGG	1 cut(s)	408
MunI	CAATTG	2 cut(s)	208, 700
MvaI	CCWGG	1 cut(s)	408
MwoI	GCNNNNNNNGC	1 cut(s)	598
NdeII	GATC	3 cut(s)	118, 610, 649
NheI	GCTAGC	1 cut(s)	373
NlaIII	CATG	9 cut(s)	90, 165, 190, 203, 521, 605, 669, 713, 781
NsiI	ATGCAT	1 cut(s)	783
NspI	RCATGY	3 cut(s)	90, 669, 781
PaeI	GCATGC	2 cut(s)	669, 781
PagI	TCATGA	1 cut(s)	199
PciI	ACATGT	1 cut(s)	86
PfeI	GAWTC	4 cut(s)	203, 225, 479, 901
PflMI	CCANNNNNTGG	1 cut(s)	746
PfoI	TCCNGGA	1 cut(s)	406
PkrI	GCNGC	3 cut(s)	264, 580, 664
PleI	GAGTC	1 cut(s)	403
PpsI	GAGTC	1 cut(s)	403
PscI	ACATGT	1 cut(s)	86
Psp6I	CCWGG	1 cut(s)	406
PspGI	CCWGG	1 cut(s)	406
PspPI	GGNCC	1 cut(s)	380
PsuI	RGATCY	1 cut(s)	118
RsaI	GTAC	1 cut(s)	839
RsaNI	GTAC	1 cut(s)	838
RseI	CAYNNNNRTG	2 cut(s)	606, 786
SaqAI	TTAA	4 cut(s)	35, 41, 906, 994
SatI	GCNGC	3 cut(s)	263, 579, 663
Sau3AI	GATC	3 cut(s)	118, 610, 649
Sau96I	GGNCC	1 cut(s)	380
SchI	GAGTC	1 cut(s)	404
ScrFI	CCNGG	1 cut(s)	408
SduI	GDGCHC	1 cut(s)	10
SetI	ASST	9 cut(s)	66, 343, 358, 526, 691, 761, 768, 850, 886
SfaNI	GCATC	3 cut(s)	744, 790, 875
SinI	GGWCC	1 cut(s)	380
SmiMI	CAYNNNNRTG	2 cut(s)	606, 786
SphI	GCATGC	2 cut(s)	669, 781
Sse9I	AATT	8 cut(s)	181, 208, 256, 496, 700, 750, 910, 991
SsiI	CCGC	1 cut(s)	371
SspI	AATATT	2 cut(s)	45, 403
SspMI	CTAG	3 cut(s)	246, 374, 756
StyD4I	CCNGG	1 cut(s)	406
StyI	CCWWGG	1 cut(s)	586
TaaI	ACNGT	1 cut(s)	890
TaqI	TCGA	1 cut(s)	223
TasI	AATT	8 cut(s)	181, 208, 256, 496, 700, 750, 910, 991
TfiI	GAWTC	4 cut(s)	203, 225, 479, 901
Tru1I	TTAA	4 cut(s)	35, 41, 906, 994
Tru9I	TTAA	4 cut(s)	35, 41, 906, 994
TscAI	CASTG	1 cut(s)	899
TseI	GCWGC	3 cut(s)	262, 578, 662
TspDTI	ATGAA	6 cut(s)	92, 150, 216, 259, 534, 904
TspRI	CASTG	1 cut(s)	899
Van91I	CCANNNNNTGG	1 cut(s)	746
VpaK11BI	GGWCC	1 cut(s)	380
XapI	RAATTY	3 cut(s)	496, 750, 910
XceI	RCATGY	3 cut(s)	90, 669, 781
XspI	CTAG	3 cut(s)	246, 374, 756
Zsp2I	ATGCAT	1 cut(s)	783

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