Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001005

Physical Location & Seq

Genomic Coordinates Reverse (-)

38973774 .. 38974448

Gene Structure 675 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG287600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGGCATCCCTCTGCATCACTGCTTACGATCGATGCAATGTGAAATGCATTAGTGTGCCGTGCAGCTCTGTTGATACCTCGGCCCAGATTCCACCAAGTGATGATGATGCGTTTAAGATCCAATTTATGTTGTACAAGGAAACCAAACACACTTTTGCACCAGATGGTGATACTCAAGAAATTTGGATGATCCCCAACACGACACAGGTCATTACAGTCCGTCCTTCCGAGCTATACAACCACGATTCTACTAGTATTATGCAATCTTCTTCAGGGCGTATGATCCTAGACTTTATTAACACCCATTTTCCTCCTCAAGACAAAATACTTCTCCCCAAAGTTGTGGCAAGAATAATTGATCTTGTTCAAAACTCCATTCCCTTGGCTCCAAATGGTTTCATTCATGTGCGACGAATTCAAGGGATTGAAATTTTGCATCGTCCTCGTAATGAAGCGACTAAAGCCTACATACATAATCGTTTTGAAGCTACGAAACGTGGGACATGTGCTATTTGTATGGATGGCTTTGAGGTTGGACGTAACACTAGTCGATTGCCTTGCTTGCATGTTTTTCATGGACCTTGCGTTGTTAAGTGGCTGGAGATCGATCTTCATTGTCCTCTTTGCCGATATTCTCTGAAACTACCTGAACTAGCACCATGGTTTAATGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009653 GO:0009791 GO:0009826 GO:0009888 GO:0009987 GO:0010026 GO:0010154 GO:0016043 GO:0016049 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0022412 GO:0022414 GO:0030154 GO:0032446 GO:0032501 GO:0032502 GO:0032504 GO:0032989 GO:0036211 GO:0040007 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0048316 GO:0048468 GO:0048589 GO:0048608 GO:0048731 GO:0048856 GO:0048869 GO:0060560 GO:0061458 GO:0070647 GO:0071704 GO:0071840 GO:0090376 GO:0090378 GO:0090558 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

224

Amino Acids

25.4

Weight (kDa)

7.59

Isoelectric Point (pI)

38.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	168 - 210	1.4e-13	Ring finger domain
zf-C3HC4_2	PF13923	169 - 209	2.9e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	169 - 196	1.3e-08	RING-like zinc finger
zf-C3HC4	PF00097	169 - 209	2.3e-06	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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001005)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g03311 FvH4_1g03372 FvH4_1g03372 FvH4_1g03372 FvH4_1g03410 FvH4_7g17680
rosa_chinensis	RchiOBHm_Chr2g0088491 RchiOBHm_Chr4g0384981 RchiOBHm_Chr6g0259471
rosa_laevigata	RLG00000014530 RLG00000015792 RLG00000015960 RLG00000022174 RLG00000029710 RLG00000033515
rosa_multiflora	Rmu_sc0004733.1_g000012 Rmu_sc0004805.1_g000053 Rmu_sc0006835.1_g000015 Rmu_sc0007698.1_g000010 Rmu_sc0014136.1_g000011 Rmu_sc0015442.1_g000010
rosa_roxburghii	Rroxscaffold_1G00021120 Rroxscaffold_2G00141560 Rroxscaffold_2G00149520 Rroxscaffold_2G00152480 Rroxscaffold_2G00154190 Rroxscaffold_5G00334720 Rroxscaffold_7G00206750
rosa_rugosa	Rorug01G0027500 Rorug01G0484600 Rorug05G0589000 Rorug06G0124200
rosa_samantha	Rh1CG038700 Rh1DG031100 Rh2AG022000 Rh2AG034300 Rh2AG039500 Rh2AG040000 Rh2AG041000 Rh2AG143100 Rh2AG402000 Rh2BG022100 Rh2BG038500 Rh2BG148200 Rh2CG022800 Rh2CG039700 Rh2CG044000 Rh2DG022500 Rh2DG034000 Rh2DG039000 Rh2DG040100 Rh2DG148800 Rh2DG422100 Rh3DG253200 Rh3DG253700 Rh4AG002200 Rh4AG021800 Rh4AG359100 Rh5AG287200 Rh5AG287600 Rh5AG306100 Rh6DG088000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	112, 184, 277
AcsI	RAATTY	3 cut(s)	180, 414, 429
AcuI	CTGAAG	1 cut(s)	255
AdeI	CACNNNGTG	1 cut(s)	98
AfaI	GTAC	1 cut(s)	134
AflIII	ACRYGT	1 cut(s)	503
AgsI	TTSAA	4 cut(s)	368, 419, 428, 485
AhlI	ACTAGT	2 cut(s)	251, 545
AluBI	AGCT	3 cut(s)	66, 232, 488
AluI	AGCT	3 cut(s)	66, 232, 488
AlwI	GGATC	3 cut(s)	112, 184, 277
AoxI	GGCC	1 cut(s)	81
ApeKI	GCWGC	1 cut(s)	63
ApoI	RAATTY	3 cut(s)	180, 414, 429
AspS9I	GGNCC	2 cut(s)	82, 578
AsuHPI	GGTGA	1 cut(s)	179
AvaII	GGWCC	1 cut(s)	578
BbvI	GCAGC	1 cut(s)	75
BccI	CCATC	2 cut(s)	158, 515
BceAI	ACGGC	1 cut(s)	43
BcgI	CGANNNNNNTGC	4 cut(s)	425, 459, 540, 574
BcuI	ACTAGT	2 cut(s)	251, 545
BfaI	CTAG	4 cut(s)	252, 287, 546, 653
BisI	GCNGC	1 cut(s)	64
BlsI	GCNGC	1 cut(s)	65
Bme18I	GGWCC	1 cut(s)	578
BmgT120I	GGNCC	2 cut(s)	82, 578
BmiI	GGNNCC	1 cut(s)	387
BmsI	GCATC	5 cut(s)	14, 23, 24, 97, 445
BoxI	GACNNNNGTC	1 cut(s)	206
BpmI	CTGGAG	1 cut(s)	620
BpuEI	CTTGAG	2 cut(s)	159, 300
Bsa29I	ATCGAT	2 cut(s)	31, 606
BsaJI	CCNNGG	3 cut(s)	78, 381, 659
Bse3DI	GCAATG	1 cut(s)	43
BseCI	ATCGAT	2 cut(s)	31, 606
BseDI	CCNNGG	3 cut(s)	78, 381, 659
BseGI	GGATG	3 cut(s)	5, 192, 526
BseMI	GCAATG	1 cut(s)	43
BseRI	GAGGAG	1 cut(s)	303
BseXI	GCAGC	1 cut(s)	75
BsgI	GTGCAG	1 cut(s)	82
Bsh1285I	CGRYCG	1 cut(s)	31
BshFI	GGCC	1 cut(s)	83
BshVI	ATCGAT	2 cut(s)	31, 606
BsiEI	CGRYCG	1 cut(s)	31
BslFI	GGGAC	1 cut(s)	514
BsmFI	GGGAC	1 cut(s)	514
BsnI	GGCC	1 cut(s)	83
Bsp1407I	TGTACA	1 cut(s)	132
Bsp143I	GATC	7 cut(s)	28, 117, 189, 282, 358, 603, 607
Bsp19I	CCATGG	1 cut(s)	659
BspANI	GGCC	1 cut(s)	83
BspDI	ATCGAT	2 cut(s)	31, 606
BspLI	GGNNCC	1 cut(s)	387
BspPI	GGATC	3 cut(s)	112, 184, 277
BsrDI	GCAATG	1 cut(s)	43
BsrGI	TGTACA	1 cut(s)	132
BssECI	CCNNGG	3 cut(s)	78, 381, 659
BssMI	GATC	7 cut(s)	28, 117, 189, 282, 358, 603, 607
BssT1I	CCWWGG	2 cut(s)	381, 659
Bst4CI	ACNGT	1 cut(s)	217
BstAUI	TGTACA	1 cut(s)	132
BstC8I	GCNNGC	1 cut(s)	563
BstDSI	CCRYGG	1 cut(s)	659
BstF5I	GGATG	3 cut(s)	5, 192, 526
BstKTI	GATC	7 cut(s)	31, 120, 192, 285, 361, 606, 610
BstMBI	GATC	7 cut(s)	28, 117, 189, 282, 358, 603, 607
BstMCI	CGRYCG	1 cut(s)	31
BstMWI	GCNNNNNNNGC	2 cut(s)	461, 562
BstNSI	RCATGY	2 cut(s)	507, 569
BstPAI	GACNNNNGTC	1 cut(s)	206
BstV1I	GCAGC	1 cut(s)	75
BstX2I	RGATCY	1 cut(s)	117
BstXI	CCANNNNNNTGG	2 cut(s)	343, 382
BstYI	RGATCY	1 cut(s)	117
Bsu15I	ATCGAT	2 cut(s)	31, 606
BsuRI	GGCC	1 cut(s)	83
BsuTUI	ATCGAT	2 cut(s)	31, 606
BtgI	CCRYGG	1 cut(s)	659
BtsCI	GGATG	3 cut(s)	5, 192, 526
BtsI	GCAGTG	1 cut(s)	18
BtsIMutI	CAGTG	1 cut(s)	18
Cac8I	GCNNGC	1 cut(s)	563
Cfr13I	GGNCC	2 cut(s)	82, 578
ClaI	ATCGAT	2 cut(s)	31, 606
Csp6I	GTAC	1 cut(s)	133
CviAII	CATG	5 cut(s)	404, 504, 566, 575, 660
CviJI	RGCY	8 cut(s)	66, 83, 232, 386, 464, 488, 525, 598
CviKI_1	RGCY	8 cut(s)	66, 83, 232, 386, 464, 488, 525, 598
CviQI	GTAC	1 cut(s)	133
DpnI	GATC	7 cut(s)	30, 119, 191, 284, 360, 605, 609
DpnII	GATC	7 cut(s)	28, 117, 189, 282, 358, 603, 607
DraIII	CACNNNGTG	1 cut(s)	98
Eco130I	CCWWGG	2 cut(s)	381, 659
Eco47I	GGWCC	1 cut(s)	578
Eco57I	CTGAAG	1 cut(s)	255
EcoRI	GAATTC	1 cut(s)	414
EcoT14I	CCWWGG	2 cut(s)	381, 659
EcoT22I	ATGCAT	2 cut(s)	50, 673
ErhI	CCWWGG	2 cut(s)	381, 659
FaeI	CATG	5 cut(s)	407, 507, 569, 578, 663
FaqI	GGGAC	1 cut(s)	514
FatI	CATG	5 cut(s)	403, 503, 565, 574, 659
Fnu4HI	GCNGC	1 cut(s)	64
FokI	GGATG	2 cut(s)	199, 533
Fsp4HI	GCNGC	1 cut(s)	64
FspBI	CTAG	4 cut(s)	252, 287, 546, 653
GluI	GCNGC	1 cut(s)	64
GsuI	CTGGAG	1 cut(s)	620
HaeIII	GGCC	1 cut(s)	83
Hin1II	CATG	5 cut(s)	407, 507, 569, 578, 663
HinfI	GANTC	2 cut(s)	88, 245
HphI	GGTGA	1 cut(s)	179
Hpy188I	TCNGA	2 cut(s)	229, 639
Hpy188III	TCNNGA	2 cut(s)	176, 317
Hpy99I	CGWCG	1 cut(s)	414
HpyAV	CCTTC	1 cut(s)	234
HpyCH4III	ACNGT	1 cut(s)	217
HpyCH4IV	ACGT	2 cut(s)	496, 538
HpyCH4V	TGCA	9 cut(s)	15, 36, 48, 63, 158, 262, 436, 565, 671
HpyF10VI	GCNNNNNNNGC	2 cut(s)	461, 562
HpySE526I	ACGT	2 cut(s)	496, 538
Hsp92II	CATG	5 cut(s)	407, 507, 569, 578, 663
Kzo9I	GATC	7 cut(s)	28, 117, 189, 282, 358, 603, 607
LmnI	GCTCC	1 cut(s)	391
LpnPI	CCDG	6 cut(s)	98, 174, 191, 258, 584, 660
Lsp1109I	GCAGC	1 cut(s)	75
LweI	GCATC	5 cut(s)	14, 23, 24, 97, 445
MaeI	CTAG	4 cut(s)	252, 287, 546, 653
MaeII	ACGT	2 cut(s)	496, 538
MaeIII	GTNAC	1 cut(s)	539
MalI	GATC	7 cut(s)	30, 119, 191, 284, 360, 605, 609
MboI	GATC	7 cut(s)	28, 117, 189, 282, 358, 603, 607
MboII	GAAGA	3 cut(s)	258, 261, 602
MflI	RGATCY	1 cut(s)	117
MluCI	AATT	5 cut(s)	122, 180, 354, 414, 429
MmeI	TCCRAC	1 cut(s)	514
MnlI	CCTC	7 cut(s)	20, 88, 321, 324, 453, 523, 630
Mph1103I	ATGCAT	2 cut(s)	50, 673
MseI	TTAA	4 cut(s)	114, 297, 591, 666
MslI	CAYNNNNRTG	2 cut(s)	53, 404
MwoI	GCNNNNNNNGC	2 cut(s)	461, 562
NcoI	CCATGG	1 cut(s)	659
NdeII	GATC	7 cut(s)	28, 117, 189, 282, 358, 603, 607
NlaIII	CATG	5 cut(s)	407, 507, 569, 578, 663
NlaIV	GGNNCC	1 cut(s)	387
NmeAIII	GCCGAG	1 cut(s)	59
NsiI	ATGCAT	2 cut(s)	50, 673
NspI	RCATGY	2 cut(s)	507, 569
PciI	ACATGT	1 cut(s)	503
PfeI	GAWTC	2 cut(s)	88, 245
PkrI	GCNGC	1 cut(s)	65
Ple19I	CGATCG	1 cut(s)	31
PscI	ACATGT	1 cut(s)	503
PshAI	GACNNNNGTC	1 cut(s)	206
PspN4I	GGNNCC	1 cut(s)	387
PspPI	GGNCC	2 cut(s)	82, 578
PsuI	RGATCY	1 cut(s)	117
PvuI	CGATCG	1 cut(s)	31
RsaI	GTAC	1 cut(s)	134
RsaNI	GTAC	1 cut(s)	133
RseI	CAYNNNNRTG	2 cut(s)	53, 404
SaqAI	TTAA	4 cut(s)	114, 297, 591, 666
SatI	GCNGC	1 cut(s)	64
Sau3AI	GATC	7 cut(s)	28, 117, 189, 282, 358, 603, 607
Sau96I	GGNCC	2 cut(s)	82, 578
SfaNI	GCATC	5 cut(s)	14, 23, 24, 97, 445
SinI	GGWCC	1 cut(s)	578
SmiMI	CAYNNNNRTG	2 cut(s)	53, 404
SmlI	CTYRAG	2 cut(s)	174, 315
SmoI	CTYRAG	2 cut(s)	174, 315
SpeI	ACTAGT	2 cut(s)	251, 545
Sse9I	AATT	5 cut(s)	122, 180, 354, 414, 429
SspMI	CTAG	4 cut(s)	252, 287, 546, 653
StyI	CCWWGG	2 cut(s)	381, 659
TaaI	ACNGT	1 cut(s)	217
TaiI	ACGT	2 cut(s)	499, 541
TaqI	TCGA	3 cut(s)	31, 550, 606
TasI	AATT	5 cut(s)	122, 180, 354, 414, 429
TatI	WGTACW	1 cut(s)	132
TfiI	GAWTC	2 cut(s)	88, 245
Tru1I	TTAA	4 cut(s)	114, 297, 591, 666
Tru9I	TTAA	4 cut(s)	114, 297, 591, 666
TscAI	CASTG	1 cut(s)	25
TseI	GCWGC	1 cut(s)	63
TspDTI	ATGAA	5 cut(s)	388, 392, 465, 563, 602
TspGWI	ACGGA	1 cut(s)	209
TspRI	CASTG	1 cut(s)	25
VpaK11BI	GGWCC	1 cut(s)	578
XapI	RAATTY	3 cut(s)	180, 414, 429
XceI	RCATGY	2 cut(s)	507, 569
XspI	CTAG	4 cut(s)	252, 287, 546, 653
Zsp2I	ATGCAT	2 cut(s)	50, 673

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