Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000820

Physical Location & Seq

Genomic Coordinates Reverse (-)

16897256 .. 16897995

Gene Structure 740 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG161700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 435 bp

ATGTTTAAACATTTCTACTTGAAAACTGGGCAATGCAAGTATGGTGCACCCTGCAAATTTAATCACCCAAAAGACATCCAGATACCATCAGCCACTCAAGAGAATAAATCTGGCGAAACTGAGACAGCTATTAAGACGGAGGGCTTTGAAGTTGCCGTGAAGCCTCTTGTTTCATTCTCTGCAGCACTATTATATTACTCCAAAGAGCTTCCTGTAAGACCGGGTGAAGCTGATTGTCCATTCTACCTGAAAACTGGAAGTTGCAAGTATGGGGCCACTTGCCGGTACAATCACCCTGATAGATATGATATCAATCTACCTGTTGCTGCAATCAGCTATTCTCTTTCAGTGCCTTCAGTTGCAGGTTTTAACATGAGTTTGATCTGTTTTACCGAGAAGGTCTACGGTTCGAGTCCGTATAGCCCTAAAACCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001709 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006417 GO:0008150 GO:0009889 GO:0009890 GO:0009892 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010629 GO:0017148 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031329 GO:0031331 GO:0032268 GO:0032269 GO:0032502 GO:0034248 GO:0034249 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043487 GO:0043488 GO:0044424 GO:0044444 GO:0044464 GO:0045165 GO:0045935 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048869 GO:0050779 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051173 GO:0051246 GO:0051248 GO:0051252 GO:0051254 GO:0060255 GO:0061013 GO:0061014 GO:0061157 GO:0061158 GO:0065007 GO:0065008 GO:0080090 GO:0097159 GO:1901363 GO:1903311 GO:1903313 GO:2000112 GO:2000113

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCCH

Protein Analysis

144

Amino Acids

15.95

Weight (kDa)

8.68

Isoelectric Point (pI)

36.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	4 - 24	7.3e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	74 - 99	9.1e-11	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_DUS3L	PF25585	76 - 98	1.2e-07	DUS3L CCCH zinc finger domain
zf_CCCH_4	PF18345	79 - 98	2.4e-06	Zinc finger domain

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: OG0000820)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G12680
fragaria_vesca	FvH4_3g13640 FvH4_3g13640 FvH4_3g13640 FvH4_3g13640 FvH4_3g13640
malus_domestica	MD03G1280400.v1.1 MD06G1158700.v1.1 MD06G1158900.v1.1 MD06G1159100.v1.1 MD10G1219700.v1.1
prunus_persica	Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.4G124000_v2.0.a1 Prupe.7G013500_v2.0.a1 Prupe.8G067100_v2.0.a1
pyrus_communis	pycom06g14160 pycom06g14170 pycom10g18590
rosa_chinensis	RchiOBHm_Chr5g0022551 RchiOBHm_Chr5g0022581 RchiOBHm_Chr5g0022611 RchiOBHm_Chr5g0022711 RchiOBHm_Chr5g0022731 RchiOBHm_Chr5g0022751 RchiOBHm_Chr5g0022761 RchiOBHm_Chr5g0022841 RchiOBHm_Chr5g0022861 RchiOBHm_Chr5g0022911
rosa_laevigata	RLG00000032672 RLG00000032674 RLG00000032675 RLG00000032677 RLG00000032679 RLG00000035293
rosa_multiflora	Rmu_sc0000401.1_g000006 Rmu_sc0000401.1_g000007 Rmu_sc0000401.1_g000014 Rmu_sc0000401.1_g000026 Rmu_sc0000401.1_g000028 Rmu_sc0010181.1_g000001 Rmu_sc0010181.1_g000004 Rmu_sc0010181.1_g000009 Rmu_sc0042157.1_g000001
rosa_roxburghii	Rroxscaffold_1G00056450 Rroxscaffold_1G00056490
rosa_rugosa	Rorug05G0075100
rosa_samantha	Rh5AG161600 Rh5BG099400 Rh5BG160400 Rh5BG160700 Rh5CG175100 Rh5DG161100 Rh5DG161300 Rh5DG161500 Rh5DG161600 Rh5DG161700 Rh5DG161900 Rh5DG162000 Rh5DG162400
rosa_wichuraiana	Rw5G014410 Rw5G014450 Rw5G014490 Rw5G014510 Rw5G014540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	353
AccI	GTMKAC	1 cut(s)	402
AcsI	RAATTY	1 cut(s)	56
AcuI	CTGAAG	1 cut(s)	339
AfaI	GTAC	1 cut(s)	287
AfiI	CCNNNNNNNGG	1 cut(s)	282
AgsI	TTSAA	2 cut(s)	22, 149
AluBI	AGCT	4 cut(s)	128, 208, 230, 336
AluI	AGCT	4 cut(s)	128, 208, 230, 336
Alw21I	GWGCWC	1 cut(s)	49
Alw26I	GTCTC	1 cut(s)	116
Alw44I	GTGCAC	1 cut(s)	45
AoxI	GGCC	1 cut(s)	273
ApaLI	GTGCAC	1 cut(s)	45
ApeKI	GCWGC	2 cut(s)	182, 326
ApoI	RAATTY	1 cut(s)	56
AspS9I	GGNCC	1 cut(s)	273
AsuC2I	CCSGG	1 cut(s)	222
AsuHPI	GGTGA	3 cut(s)	56, 236, 284
BaeGI	GKGCMC	1 cut(s)	49
Bbv12I	GWGCWC	1 cut(s)	49
BbvI	GCAGC	2 cut(s)	194, 313
BccI	CCATC	1 cut(s)	94
BceAI	ACGGC	1 cut(s)	140
BcnI	CCSGG	1 cut(s)	222
BcoDI	GTCTC	1 cut(s)	116
BfmI	CTRYAG	1 cut(s)	180
BfuAI	ACCTGC	1 cut(s)	353
BisI	GCNGC	2 cut(s)	183, 327
BlsI	GCNGC	2 cut(s)	184, 328
Bme1390I	CCNGG	1 cut(s)	222
BmgT120I	GGNCC	1 cut(s)	273
BmiI	GGNNCC	1 cut(s)	274
BmrFI	CCNGG	1 cut(s)	222
BmrI	ACTGGG	1 cut(s)	36
BmuI	ACTGGG	1 cut(s)	36
BpuEI	CTTGAG	1 cut(s)	81
BpuMI	CCSGG	1 cut(s)	222
BsaBI	GATNNNNATC	1 cut(s)	312
Bsc4I	CCNNNNNNNGG	1 cut(s)	282
Bse118I	RCCGGY	1 cut(s)	282
Bse1I	ACTGG	2 cut(s)	31, 259
Bse3DI	GCAATG	1 cut(s)	38
Bse8I	GATNNNNATC	1 cut(s)	312
BseGI	GGATG	1 cut(s)	75
BseJI	GATNNNNATC	1 cut(s)	312
BseLI	CCNNNNNNNGG	1 cut(s)	282
BseMI	GCAATG	1 cut(s)	38
BseMII	CTCAG	1 cut(s)	111
BseNI	ACTGG	2 cut(s)	31, 259
BseSI	GKGCMC	1 cut(s)	49
BseXI	GCAGC	2 cut(s)	194, 313
BshFI	GGCC	1 cut(s)	275
BsiHKAI	GWGCWC	1 cut(s)	49
BsiSI	CCGG	2 cut(s)	221, 283
BslI	CCNNNNNNNGG	1 cut(s)	282
BsmAI	GTCTC	1 cut(s)	116
BsnI	GGCC	1 cut(s)	275
Bsp1286I	GDGCHC	1 cut(s)	49
Bsp143I	GATC	1 cut(s)	381
BspANI	GGCC	1 cut(s)	275
BspCNI	CTCAG	1 cut(s)	112
BspLI	GGNNCC	1 cut(s)	274
BspMAI	CTGCAG	1 cut(s)	184
BspMI	ACCTGC	1 cut(s)	353
BsrDI	GCAATG	1 cut(s)	38
BsrFI	RCCGGY	1 cut(s)	282
BsrI	ACTGG	2 cut(s)	31, 259
BssAI	RCCGGY	1 cut(s)	282
BssMI	GATC	1 cut(s)	381
Bst4CI	ACNGT	1 cut(s)	407
BstDEI	CTNAG	1 cut(s)	120
BstF5I	GGATG	1 cut(s)	75
BstKTI	GATC	1 cut(s)	384
BstMAI	GTCTC	1 cut(s)	116
BstMBI	GATC	1 cut(s)	381
BstSCI	CCNGG	1 cut(s)	220
BstSFI	CTRYAG	1 cut(s)	180
BstSLI	GKGCMC	1 cut(s)	49
BstV1I	GCAGC	2 cut(s)	194, 313
BsuRI	GGCC	1 cut(s)	275
BtsCI	GGATG	1 cut(s)	75
BtsIMutI	CAGTG	1 cut(s)	354
BveI	ACCTGC	1 cut(s)	353
Cfr10I	RCCGGY	1 cut(s)	282
Cfr13I	GGNCC	1 cut(s)	273
Csp6I	GTAC	1 cut(s)	286
CviAII	CATG	1 cut(s)	373
CviJI	RGCY	9 cut(s)	92, 128, 144, 163, 208, 230, 275, 336, 423
CviKI_1	RGCY	9 cut(s)	92, 128, 144, 163, 208, 230, 275, 336, 423
CviQI	GTAC	1 cut(s)	286
DdeI	CTNAG	1 cut(s)	120
DpnI	GATC	1 cut(s)	383
DpnII	GATC	1 cut(s)	381
DraI	TTTAAA	1 cut(s)	7
Eco32I	GATATC	1 cut(s)	310
Eco57I	CTGAAG	1 cut(s)	339
EcoRV	GATATC	1 cut(s)	310
FaeI	CATG	1 cut(s)	376
FaiI	YATR	6 cut(s)	42, 193, 270, 306, 374, 420
FatI	CATG	1 cut(s)	372
FblI	GTMKAC	1 cut(s)	402
Fnu4HI	GCNGC	2 cut(s)	183, 327
FokI	GGATG	1 cut(s)	62
Fsp4HI	GCNGC	2 cut(s)	183, 327
GluI	GCNGC	2 cut(s)	183, 327
HaeIII	GGCC	1 cut(s)	275
HapII	CCGG	2 cut(s)	221, 283
Hin1II	CATG	1 cut(s)	376
HinfI	GANTC	1 cut(s)	412
HpaII	CCGG	2 cut(s)	221, 283
HphI	GGTGA	3 cut(s)	56, 236, 284
Hpy166II	GTNNAC	2 cut(s)	47, 403
Hpy188III	TCNNGA	2 cut(s)	79, 98
Hpy8I	GTNNAC	2 cut(s)	47, 403
HpyAV	CCTTC	2 cut(s)	363, 391
HpyCH4III	ACNGT	1 cut(s)	407
HpyCH4V	TGCA	7 cut(s)	36, 47, 54, 182, 264, 329, 362
HpyF3I	CTNAG	1 cut(s)	120
Hsp92II	CATG	1 cut(s)	376
Kzo9I	GATC	1 cut(s)	381
Lsp1109I	GCAGC	2 cut(s)	194, 313
MalI	GATC	1 cut(s)	383
MboI	GATC	1 cut(s)	381
MhlI	GDGCHC	1 cut(s)	49
MluCI	AATT	1 cut(s)	56
MlyI	GAGTC	1 cut(s)	421
MnlI	CCTC	2 cut(s)	133, 174
MseI	TTAA	4 cut(s)	6, 60, 132, 369
MspI	CCGG	2 cut(s)	221, 283
MspR9I	CCNGG	1 cut(s)	222
MssI	GTTTAAAC	1 cut(s)	7
NciI	CCSGG	1 cut(s)	222
NdeII	GATC	1 cut(s)	381
NlaIII	CATG	1 cut(s)	376
NlaIV	GGNNCC	1 cut(s)	274
PkrI	GCNGC	2 cut(s)	184, 328
PleI	GAGTC	1 cut(s)	420
PmeI	GTTTAAAC	1 cut(s)	7
PpsI	GAGTC	1 cut(s)	420
PspN4I	GGNNCC	1 cut(s)	274
PspPI	GGNCC	1 cut(s)	273
PstI	CTGCAG	1 cut(s)	184
RsaI	GTAC	1 cut(s)	287
RsaNI	GTAC	1 cut(s)	286
SaqAI	TTAA	4 cut(s)	6, 60, 132, 369
SatI	GCNGC	2 cut(s)	183, 327
Sau3AI	GATC	1 cut(s)	381
Sau96I	GGNCC	1 cut(s)	273
SchI	GAGTC	1 cut(s)	421
ScrFI	CCNGG	1 cut(s)	222
SduI	GDGCHC	1 cut(s)	49
SetI	ASST	9 cut(s)	130, 210, 232, 249, 322, 338, 367, 402, 434
SfcI	CTRYAG	1 cut(s)	180
SmlI	CTYRAG	1 cut(s)	96
SmoI	CTYRAG	1 cut(s)	96
Sse9I	AATT	1 cut(s)	56
StyD4I	CCNGG	1 cut(s)	220
TaaI	ACNGT	1 cut(s)	407
TaqI	TCGA	1 cut(s)	410
TasI	AATT	1 cut(s)	56
Tru1I	TTAA	4 cut(s)	6, 60, 132, 369
Tru9I	TTAA	4 cut(s)	6, 60, 132, 369
TscAI	CASTG	1 cut(s)	354
TseI	GCWGC	2 cut(s)	182, 326
TspDTI	ATGAA	1 cut(s)	162
TspGWI	ACGGA	2 cut(s)	152, 405
TspRI	CASTG	1 cut(s)	354
VneI	GTGCAC	1 cut(s)	45
XapI	RAATTY	1 cut(s)	56
XmiI	GTMKAC	1 cut(s)	402

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