Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001285

Physical Location & Seq

Genomic Coordinates Forward (+)

86784779 .. 86785459

Gene Structure 681 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG545700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 681 bp

ATGACTGGTAGTAACCCAACTCATGCACCTCCTCCCAGACATTCAGCAGCCCCACCATCATTTCCAGATGGTTCTTCTCCACCAGCTGTCAAGACACGGTTATGCAACAAATACAACACAGCTGAAGGTTGCAAGTTTGGAGATAAATGTCATTTTGCTCACGGTGAATATGAGCTTGGGAGGCCCACTGCTCAATCTTATGATGATCCTCGTGGTGGGGGAGCAATGCATGGAAGGATGGGAGGTCGGAATGAGCCTCCCCCACCAAGTCATGGAGGTGCAGGTAGATTTGGGGCCATTGCCAATGCTAAGATTAGTGTAGATGCTTCCCTCGCCGGAGCCATAATTGGAAAAAATGGTCTGAACTCAAAGCAGATTTGTCGTGTGACTGGAGCAAAGCTTTCTATAAGAGAGCATGAGTCAGATCCGAAGCTGAGGAACATTGAGCTTGAGGGTACTTTTGATCAGATTAAAGATGCCAGTGCCATGGTTCAAGATATTATTGTGAACGTGAGCTCAGCTGCTGGACCTCACATGAGAAATCCTTCTATGGGGGCTTCTCAAGGAAGTAGTAACTTCAAGACTAAGCTTTGCGAGAATTTTACTAAAGGTCAATGCACATTTGGTGACAGGTGCCACTTTGCACATGGGGCTGAAGAATTGCGCAGGGGAGGGATGTGA

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

KH_1 zf-CCCH zf-CCCH_2

Protein Analysis

226

Amino Acids

23.85

Weight (kDa)

9.01

Isoelectric Point (pI)

40.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	31 - 56	1.6e-06	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
KH_1	PF00013	104 - 166	2.3e-12	KH domain
zf-CCCH	PF00642	193 - 217	1.8e-08	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	196 - 216	1.1e-06	CCCH-type zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0001285)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G12130 AT3G12130 AT5G06770 AT5G06770 AT5G06770 AT5G06770 AT5G06770 AT5G06770
fragaria_vesca	FvH4_3g44210 FvH4_3g44210 FvH4_3g44210 FvH4_3g44210 FvH4_6g22430 FvH4_6g22430 FvH4_6g22430 FvH4_6g22430
malus_domestica	MD00G1203400.v1.1 MD00G1203500.v1.1 MD03G1016300.v1.1 MD11G1017100.v1.1 MD12G1059600.v1.1 MD14G1058500.v1.1
prunus_persica	Prupe.6G014800_v2.0.a1 Prupe.6G014800_v2.0.a1 Prupe.7G076300_v2.0.a1 Prupe.7G076300_v2.0.a1
pyrus_communis	pycom03g01400 pycom11g01200 pycom12g05140 pycom14g04730
rosa_chinensis	RchiOBHm_Chr3g0479791 RchiOBHm_Chr5g0080561
rosa_laevigata	RLG00000023536 RLG00000036868
rosa_multiflora	Rmu_co8493965.1_g000001 Rmu_sc0000359.1_g000003 Rmu_sc0004329.1_g000008
rosa_roxburghii	Rroxscaffold_1G00002820 Rroxscaffold_6G00401970
rosa_rugosa	Rorug03G0178900 Rorug03G0179000 Rorug05G0470100 Rorug05G0470200
rosa_samantha	Rh3AG229200 Rh3BG262400 Rh3CG259200 Rh3DG255400 Rh5AG523600 Rh5BG545700 Rh5CG568900 Rh5DG555800
rosa_wichuraiana	Rw0G002260 Rw0G015290 Rw0G019210 Rw5G048590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	665
Acc36I	ACCTGC	1 cut(s)	272
AccB1I	GGYRCC	1 cut(s)	633
AccB7I	CCANNNNNTGG	1 cut(s)	272
AclWI	GGATC	2 cut(s)	200, 419
AcsI	RAATTY	1 cut(s)	598
AcuI	CTGAAG	2 cut(s)	144, 675
AfaI	GTAC	1 cut(s)	457
AfiI	CCNNNNNNNGG	3 cut(s)	215, 272, 551
AgsI	TTSAA	2 cut(s)	494, 580
AjuI	GAANNNNNNNTTGG	2 cut(s)	159, 191
AluBI	AGCT	9 cut(s)	86, 122, 175, 400, 433, 448, 516, 521, 589
AluI	AGCT	9 cut(s)	86, 122, 175, 400, 433, 448, 516, 521, 589
Alw21I	GWGCWC	1 cut(s)	518
AlwI	GGATC	2 cut(s)	200, 419
AlwNI	CAGNNNCTG	1 cut(s)	524
AoxI	GGCC	2 cut(s)	182, 294
ApeKI	GCWGC	2 cut(s)	47, 521
ApoI	RAATTY	1 cut(s)	598
Asp700I	GAANNNNTTC	1 cut(s)	544
AspLEI	GCGC	1 cut(s)	666
AspS9I	GGNCC	3 cut(s)	183, 294, 527
AsuHPI	GGTGA	2 cut(s)	176, 638
AvaII	GGWCC	1 cut(s)	527
BanI	GGYRCC	1 cut(s)	633
BanII	GRGCYC	1 cut(s)	518
BauI	CACGAG	1 cut(s)	210
Bbv12I	GWGCWC	1 cut(s)	518
BbvCI	CCTCAGC	1 cut(s)	434
BbvI	GCAGC	2 cut(s)	59, 508
BccI	CCATC	3 cut(s)	62, 64, 232
BcgI	CGANNNNNNTGC	2 cut(s)	362, 396
BclI	TGATCA	1 cut(s)	463
BfuAI	ACCTGC	1 cut(s)	272
BisI	GCNGC	2 cut(s)	48, 522
BlpI	GCTNAGC	1 cut(s)	517
BlsI	GCNGC	2 cut(s)	49, 523
Bme18I	GGWCC	1 cut(s)	527
BmgT120I	GGNCC	3 cut(s)	183, 294, 527
BmiI	GGNNCC	3 cut(s)	295, 340, 635
BmsI	GCATC	2 cut(s)	313, 466
BpmI	CTGGAG	1 cut(s)	411
Bpu10I	CCTNAGC	1 cut(s)	434
Bpu1102I	GCTNAGC	1 cut(s)	517
BpuEI	CTTGAG	2 cut(s)	470, 546
BsaJI	CCNNGG	1 cut(s)	486
Bsc4I	CCNNNNNNNGG	3 cut(s)	215, 272, 551
Bse1I	ACTGG	3 cut(s)	10, 394, 480
Bse3DI	GCAATG	2 cut(s)	231, 297
BseDI	CCNNGG	1 cut(s)	486
BseGI	GGATG	2 cut(s)	243, 681
BseLI	CCNNNNNNNGG	3 cut(s)	215, 272, 551
BseMI	GCAATG	2 cut(s)	231, 297
BseMII	CTCAG	2 cut(s)	425, 531
BseNI	ACTGG	3 cut(s)	10, 394, 480
BseRI	GAGGAG	1 cut(s)	21
BseXI	GCAGC	2 cut(s)	59, 508
BsgI	GTGCAG	1 cut(s)	300
BshFI	GGCC	2 cut(s)	184, 296
BshNI	GGYRCC	1 cut(s)	633
BsiHKAI	GWGCWC	1 cut(s)	518
BsiSI	CCGG	1 cut(s)	336
BslI	CCNNNNNNNGG	3 cut(s)	215, 272, 551
BsnI	GGCC	2 cut(s)	184, 296
Bsp1286I	GDGCHC	1 cut(s)	518
Bsp143I	GATC	3 cut(s)	205, 424, 463
Bsp1720I	GCTNAGC	1 cut(s)	517
Bsp19I	CCATGG	1 cut(s)	486
BspANI	GGCC	2 cut(s)	184, 296
BspCNI	CTCAG	2 cut(s)	426, 530
BspLI	GGNNCC	3 cut(s)	295, 340, 635
BspMI	ACCTGC	1 cut(s)	272
BspPI	GGATC	2 cut(s)	200, 419
BspT107I	GGYRCC	1 cut(s)	633
BsrDI	GCAATG	2 cut(s)	231, 297
BsrI	ACTGG	3 cut(s)	10, 394, 480
BssECI	CCNNGG	1 cut(s)	486
BssMI	GATC	3 cut(s)	205, 424, 463
BssSI	CACGAG	1 cut(s)	210
BssT1I	CCWWGG	1 cut(s)	486
Bst2BI	CACGAG	1 cut(s)	210
Bst4CI	ACNGT	2 cut(s)	99, 164
BstDEI	CTNAG	4 cut(s)	309, 434, 517, 585
BstDSI	CCRYGG	1 cut(s)	486
BstF5I	GGATG	2 cut(s)	243, 681
BstHHI	GCGC	1 cut(s)	666
BstKTI	GATC	3 cut(s)	208, 427, 466
BstMBI	GATC	3 cut(s)	205, 424, 463
BstMWI	GCNNNNNNNGC	3 cut(s)	181, 332, 650
BstV1I	GCAGC	2 cut(s)	59, 508
BstX2I	RGATCY	1 cut(s)	424
BstXI	CCANNNNNNTGG	1 cut(s)	487
BstYI	RGATCY	1 cut(s)	424
BsuRI	GGCC	2 cut(s)	184, 296
BtgI	CCRYGG	1 cut(s)	486
BtsCI	GGATG	2 cut(s)	243, 681
BtsI	GCAGTG	1 cut(s)	186
BtsIMutI	CAGTG	2 cut(s)	186, 487
BveI	ACCTGC	1 cut(s)	272
CaiI	CAGNNNCTG	1 cut(s)	524
CfoI	GCGC	1 cut(s)	666
Cfr13I	GGNCC	3 cut(s)	183, 294, 527
Csp6I	GTAC	1 cut(s)	456
CviAII	CATG	7 cut(s)	23, 230, 272, 416, 487, 535, 647
CviQI	GTAC	1 cut(s)	456
DdeI	CTNAG	4 cut(s)	309, 434, 517, 585
DpnI	GATC	3 cut(s)	207, 426, 465
DpnII	GATC	3 cut(s)	205, 424, 463
Ecl136II	GAGCTC	1 cut(s)	516
Eco130I	CCWWGG	1 cut(s)	486
Eco24I	GRGCYC	1 cut(s)	518
Eco47I	GGWCC	1 cut(s)	527
Eco53kI	GAGCTC	1 cut(s)	516
Eco57I	CTGAAG	2 cut(s)	144, 675
EcoICRI	GAGCTC	1 cut(s)	516
EcoT14I	CCWWGG	1 cut(s)	486
EcoT22I	ATGCAT	1 cut(s)	231
EcoT38I	GRGCYC	1 cut(s)	518
ErhI	CCWWGG	1 cut(s)	486
FaeI	CATG	7 cut(s)	26, 233, 275, 419, 490, 538, 650
FatI	CATG	7 cut(s)	22, 229, 271, 415, 486, 534, 646
FbaI	TGATCA	1 cut(s)	463
Fnu4HI	GCNGC	2 cut(s)	48, 522
FokI	GGATG	1 cut(s)	250
FriOI	GRGCYC	1 cut(s)	518
Fsp4HI	GCNGC	2 cut(s)	48, 522
FspI	TGCGCA	1 cut(s)	665
GlaI	GCGC	1 cut(s)	665
GluI	GCNGC	2 cut(s)	48, 522
GsuI	CTGGAG	1 cut(s)	411
HaeIII	GGCC	2 cut(s)	184, 296
HapII	CCGG	1 cut(s)	336
HhaI	GCGC	1 cut(s)	666
Hin1II	CATG	7 cut(s)	26, 233, 275, 419, 490, 538, 650
Hin6I	GCGC	1 cut(s)	664
HinP1I	GCGC	1 cut(s)	664
HindIII	AAGCTT	2 cut(s)	398, 587
HinfI	GANTC	1 cut(s)	419
HpaII	CCGG	1 cut(s)	336
HphI	GGTGA	2 cut(s)	176, 638
Hpy166II	GTNNAC	1 cut(s)	508
Hpy188I	TCNGA	5 cut(s)	249, 363, 424, 429, 468
Hpy188III	TCNNGA	4 cut(s)	65, 91, 494, 580
Hpy8I	GTNNAC	1 cut(s)	508
HpyAV	CCTTC	3 cut(s)	119, 228, 555
HpyCH4III	ACNGT	2 cut(s)	99, 164
HpyCH4IV	ACGT	1 cut(s)	510
HpyCH4V	TGCA	7 cut(s)	26, 105, 132, 229, 281, 618, 644
HpyF10VI	GCNNNNNNNGC	3 cut(s)	181, 332, 650
HpyF3I	CTNAG	4 cut(s)	309, 434, 517, 585
HpySE526I	ACGT	1 cut(s)	510
Hsp92II	CATG	7 cut(s)	26, 233, 275, 419, 490, 538, 650
HspAI	GCGC	1 cut(s)	664
Ksp22I	TGATCA	1 cut(s)	463
Kzo9I	GATC	3 cut(s)	205, 424, 463
LmnI	GCTCC	3 cut(s)	221, 338, 392
Lsp1109I	GCAGC	2 cut(s)	59, 508
LweI	GCATC	2 cut(s)	313, 466
MaeII	ACGT	1 cut(s)	510
MaeIII	GTNAC	4 cut(s)	11, 385, 572, 626
MalI	GATC	3 cut(s)	207, 426, 465
MboI	GATC	3 cut(s)	205, 424, 463
MboII	GAAGA	2 cut(s)	66, 668
MflI	RGATCY	1 cut(s)	424
MhlI	GDGCHC	1 cut(s)	518
MluCI	AATT	3 cut(s)	345, 598, 659
MlyI	GAGTC	1 cut(s)	428
MmeI	TCCRAC	1 cut(s)	227
Mph1103I	ATGCAT	1 cut(s)	231
MroXI	GAANNNNTTC	1 cut(s)	544
MseI	TTAA	1 cut(s)	471
MslI	CAYNNNNRTG	2 cut(s)	100, 276
MspA1I	CMGCKG	3 cut(s)	86, 122, 521
MspI	CCGG	1 cut(s)	336
MwoI	GCNNNNNNNGC	3 cut(s)	181, 332, 650
NcoI	CCATGG	1 cut(s)	486
NdeII	GATC	3 cut(s)	205, 424, 463
NlaIII	CATG	7 cut(s)	26, 233, 275, 419, 490, 538, 650
NlaIV	GGNNCC	3 cut(s)	295, 340, 635
NmuCI	GTSAC	2 cut(s)	385, 626
NsbI	TGCGCA	1 cut(s)	665
NsiI	ATGCAT	1 cut(s)	231
PdmI	GAANNNNTTC	1 cut(s)	544
PflMI	CCANNNNNTGG	1 cut(s)	272
PkrI	GCNGC	2 cut(s)	49, 523
PleI	GAGTC	1 cut(s)	427
PpsI	GAGTC	1 cut(s)	427
Psp124BI	GAGCTC	1 cut(s)	518
PspN4I	GGNNCC	3 cut(s)	295, 340, 635
PspPI	GGNCC	3 cut(s)	183, 294, 527
PstNI	CAGNNNCTG	1 cut(s)	524
PsuI	RGATCY	1 cut(s)	424
PvuII	CAGCTG	3 cut(s)	86, 122, 521
RsaI	GTAC	1 cut(s)	457
RsaNI	GTAC	1 cut(s)	456
RseI	CAYNNNNRTG	2 cut(s)	100, 276
SacI	GAGCTC	1 cut(s)	518
SaqAI	TTAA	1 cut(s)	471
SatI	GCNGC	2 cut(s)	48, 522
Sau3AI	GATC	3 cut(s)	205, 424, 463
Sau96I	GGNCC	3 cut(s)	183, 294, 527
SchI	GAGTC	1 cut(s)	428
SduI	GDGCHC	1 cut(s)	518
SfaNI	GCATC	2 cut(s)	313, 466
SinI	GGWCC	1 cut(s)	527
SmiMI	CAYNNNNRTG	2 cut(s)	100, 276
SmlI	CTYRAG	2 cut(s)	449, 561
SmoI	CTYRAG	2 cut(s)	449, 561
Sse9I	AATT	3 cut(s)	345, 598, 659
SstI	GAGCTC	1 cut(s)	518
StyI	CCWWGG	1 cut(s)	486
TaaI	ACNGT	2 cut(s)	99, 164
TaiI	ACGT	1 cut(s)	513
TasI	AATT	3 cut(s)	345, 598, 659
Tru1I	TTAA	1 cut(s)	471
Tru9I	TTAA	1 cut(s)	471
TscAI	CASTG	2 cut(s)	193, 487
TseFI	GTSAC	2 cut(s)	385, 626
TseI	GCWGC	2 cut(s)	47, 521
Tsp45I	GTSAC	2 cut(s)	385, 626
TspRI	CASTG	2 cut(s)	193, 487
Van91I	CCANNNNNTGG	1 cut(s)	272
VpaK11BI	GGWCC	1 cut(s)	527
XapI	RAATTY	1 cut(s)	598
XcmI	CCANNNNNNNNNTGG	1 cut(s)	644
XmnI	GAANNNNTTC	1 cut(s)	544
Zsp2I	ATGCAT	1 cut(s)	231

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