Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000820

Physical Location & Seq

Genomic Coordinates Reverse (-)

16882305 .. 16885258

Gene Structure 2954 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG161300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 510 bp

ATGGTATCTCTGGCAATAAGGAATGATGCCAACTTGATTCGACTTTGTTCTCAGGGTTTGGTGACATTAAACTTCCTACAAGAGAAAAAGGAAGCAGATTTTCGTTATGGACTTGTGCACGTTCGAGAAAATGCTGAATCAATAGCTTTCTATAGTGGTGAAGACAATGAAATGCAACTTTTGCTGCAATGCTTCAAAAGTGCTTTTGAGAATCTAACTTATTATATGAAGACTGGAGAATGTAAGTATGGTGCACAATGCAGATTCCATCACCCAATTGATAGGCCAGCAGTGGCATTGTCAACAACAAAGCCATCTCAACAAGAAAATGTGAAGCTAACGCTTGCTGGACTACCTAGGAGAGAGGGTGCCGTTATCTATGTGTATTACCTTAAAACCGGCGCTTGCAAGTATGGTGCAACCTGCAGATTTGACCACCCACCTCCTGGCGAAGTTGTAGCAATGGCAGCTTCACAAGGAAAATCTGATTCTACCGGAGGGAAAGCATAA

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

169

Amino Acids

18.74

Weight (kDa)

8.5

Isoelectric Point (pI)

32.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ABC_membrane_2	PF06472	10 - 77	3.4e-14	ABC transporter transmembrane region 2
zf-CCCH	PF00642	74 - 92	4.7e-09	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	129 - 148	5.2e-08	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf_CCCH_4	PF18345	129 - 146	7.9e-06	Zinc finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)	431
AccB1I	GGYRCC	1 cut(s)	368
AccB7I	CCANNNNNTGG	1 cut(s)	446
AfiI	CCNNNNNNNGG	1 cut(s)	446
AgsI	TTSAA	1 cut(s)	196
AjnI	CCWGG	1 cut(s)	445
AluBI	AGCT	3 cut(s)	146, 337, 470
AluI	AGCT	3 cut(s)	146, 337, 470
Alw21I	GWGCWC	2 cut(s)	120, 256
Alw44I	GTGCAC	2 cut(s)	116, 252
AoxI	GGCC	1 cut(s)	284
ApaLI	GTGCAC	2 cut(s)	116, 252
ApeKI	GCWGC	2 cut(s)	184, 467
AspA2I	CCTAGG	1 cut(s)	356
AspLEI	GCGC	1 cut(s)	404
AsuHPI	GGTGA	3 cut(s)	73, 170, 263
AvrII	CCTAGG	1 cut(s)	356
BaeGI	GKGCMC	2 cut(s)	120, 256
BanI	GGYRCC	1 cut(s)	368
BbsI	GAAGAC	2 cut(s)	168, 236
Bbv12I	GWGCWC	2 cut(s)	120, 256
BbvI	GCAGC	2 cut(s)	171, 479
BccI	CCATC	2 cut(s)	276, 322
BceAI	ACGGC	1 cut(s)	356
BciT130I	CCWGG	1 cut(s)	447
BfaI	CTAG	1 cut(s)	357
BfmI	CTRYAG	2 cut(s)	151, 424
BfoI	RGCGCY	1 cut(s)	405
BfuAI	ACCTGC	1 cut(s)	431
BisI	GCNGC	2 cut(s)	185, 468
BlnI	CCTAGG	1 cut(s)	356
BlsI	GCNGC	2 cut(s)	186, 469
Bme1390I	CCNGG	1 cut(s)	447
BmiI	GGNNCC	1 cut(s)	370
BmrFI	CCNGG	1 cut(s)	447
BmsI	GCATC	1 cut(s)	16
BpiI	GAAGAC	2 cut(s)	168, 236
BpmI	CTGGAG	1 cut(s)	255
BsaJI	CCNNGG	1 cut(s)	356
BsaWI	WCCGGW	1 cut(s)	494
BsaXI	ACNNNNNCTCC	2 cut(s)	352, 382
Bsc4I	CCNNNNNNNGG	1 cut(s)	446
Bse118I	RCCGGY	1 cut(s)	398
Bse1I	ACTGG	1 cut(s)	238
Bse3DI	GCAATG	2 cut(s)	194, 468
BseBI	CCWGG	1 cut(s)	447
BseDI	CCNNGG	1 cut(s)	356
BseLI	CCNNNNNNNGG	1 cut(s)	446
BseMI	GCAATG	2 cut(s)	194, 468
BseMII	CTCAG	1 cut(s)	65
BseNI	ACTGG	1 cut(s)	238
BseSI	GKGCMC	2 cut(s)	120, 256
BseXI	GCAGC	2 cut(s)	171, 479
BshFI	GGCC	1 cut(s)	286
BshNI	GGYRCC	1 cut(s)	368
BsiHKAI	GWGCWC	2 cut(s)	120, 256
BsiSI	CCGG	2 cut(s)	399, 495
BslI	CCNNNNNNNGG	1 cut(s)	446
BsnI	GGCC	1 cut(s)	286
Bsp1286I	GDGCHC	2 cut(s)	120, 256
BspANI	GGCC	1 cut(s)	286
BspCNI	CTCAG	1 cut(s)	64
BspLI	GGNNCC	1 cut(s)	370
BspMAI	CTGCAG	1 cut(s)	428
BspMI	ACCTGC	1 cut(s)	431
BspT107I	GGYRCC	1 cut(s)	368
BsrDI	GCAATG	2 cut(s)	194, 468
BsrFI	RCCGGY	1 cut(s)	398
BsrI	ACTGG	1 cut(s)	238
BssAI	RCCGGY	1 cut(s)	398
BssECI	CCNNGG	1 cut(s)	356
BssT1I	CCWWGG	1 cut(s)	356
Bst2UI	CCWGG	1 cut(s)	447
BstAPI	GCANNNNNTGC	1 cut(s)	181
BstC8I	GCNNGC	3 cut(s)	288, 345, 406
BstDEI	CTNAG	1 cut(s)	51
BstH2I	RGCGCY	1 cut(s)	405
BstHHI	GCGC	1 cut(s)	404
BstMWI	GCNNNNNNNGC	2 cut(s)	181, 467
BstNI	CCWGG	1 cut(s)	447
BstSCI	CCNGG	1 cut(s)	445
BstSFI	CTRYAG	2 cut(s)	151, 424
BstSLI	GKGCMC	2 cut(s)	120, 256
BstV1I	GCAGC	2 cut(s)	171, 479
BstV2I	GAAGAC	2 cut(s)	168, 236
BsuRI	GGCC	1 cut(s)	286
BtsI	GCAGTG	1 cut(s)	297
BtsIMutI	CAGTG	1 cut(s)	297
BveI	ACCTGC	1 cut(s)	431
Cac8I	GCNNGC	3 cut(s)	288, 345, 406
CfoI	GCGC	1 cut(s)	404
Cfr10I	RCCGGY	1 cut(s)	398
CviJI	RGCY	5 cut(s)	146, 286, 313, 337, 470
CviKI_1	RGCY	5 cut(s)	146, 286, 313, 337, 470
DdeI	CTNAG	1 cut(s)	51
Eco130I	CCWWGG	1 cut(s)	356
EcoRII	CCWGG	1 cut(s)	445
EcoT14I	CCWWGG	1 cut(s)	356
ErhI	CCWWGG	1 cut(s)	356
FaiI	YATR	8 cut(s)	108, 153, 225, 227, 249, 381, 414, 508
Fnu4HI	GCNGC	2 cut(s)	185, 468
Fsp4HI	GCNGC	2 cut(s)	185, 468
FspBI	CTAG	1 cut(s)	357
GlaI	GCGC	1 cut(s)	403
GluI	GCNGC	2 cut(s)	185, 468
GsuI	CTGGAG	1 cut(s)	255
HaeII	RGCGCY	1 cut(s)	405
HaeIII	GGCC	1 cut(s)	286
HapII	CCGG	2 cut(s)	399, 495
HhaI	GCGC	1 cut(s)	404
Hin6I	GCGC	1 cut(s)	402
HinP1I	GCGC	1 cut(s)	402
HincII	GTYRAC	1 cut(s)	303
HindII	GTYRAC	1 cut(s)	303
HinfI	GANTC	5 cut(s)	37, 137, 211, 264, 488
HpaII	CCGG	2 cut(s)	399, 495
HphI	GGTGA	3 cut(s)	73, 170, 263
Hpy166II	GTNNAC	3 cut(s)	118, 254, 303
Hpy188I	TCNGA	1 cut(s)	487
Hpy188III	TCNNGA	1 cut(s)	125
Hpy8I	GTNNAC	3 cut(s)	118, 254, 303
HpyCH4IV	ACGT	1 cut(s)	120
HpyCH4V	TGCA	8 cut(s)	118, 175, 187, 254, 261, 408, 419, 426
HpyF10VI	GCNNNNNNNGC	2 cut(s)	181, 467
HpyF3I	CTNAG	1 cut(s)	51
HpySE526I	ACGT	1 cut(s)	120
HspAI	GCGC	1 cut(s)	402
LpnPI	CCDG	8 cut(s)	38, 219, 300, 333, 412, 432, 436, 459
Lsp1109I	GCAGC	2 cut(s)	171, 479
LweI	GCATC	1 cut(s)	16
MaeI	CTAG	1 cut(s)	357
MaeII	ACGT	1 cut(s)	120
MaeIII	GTNAC	1 cut(s)	61
MboII	GAAGA	2 cut(s)	173, 241
MfeI	CAATTG	1 cut(s)	276
MhlI	GDGCHC	2 cut(s)	120, 256
MluCI	AATT	1 cut(s)	276
MnlI	CCTC	3 cut(s)	358, 453, 491
MseI	TTAA	2 cut(s)	68, 393
MspI	CCGG	2 cut(s)	399, 495
MspR9I	CCNGG	1 cut(s)	447
MunI	CAATTG	1 cut(s)	276
MvaI	CCWGG	1 cut(s)	447
MwoI	GCNNNNNNNGC	2 cut(s)	181, 467
NlaIV	GGNNCC	1 cut(s)	370
NmuCI	GTSAC	1 cut(s)	61
PfeI	GAWTC	5 cut(s)	37, 137, 211, 264, 488
PflMI	CCANNNNNTGG	1 cut(s)	446
PkrI	GCNGC	2 cut(s)	186, 469
Psp6I	CCWGG	1 cut(s)	445
PspGI	CCWGG	1 cut(s)	445
PspN4I	GGNNCC	1 cut(s)	370
PstI	CTGCAG	1 cut(s)	428
SaqAI	TTAA	2 cut(s)	68, 393
SatI	GCNGC	2 cut(s)	185, 468
ScrFI	CCNGG	1 cut(s)	447
SduI	GDGCHC	2 cut(s)	120, 256
SetI	ASST	8 cut(s)	123, 148, 339, 358, 393, 425, 445, 472
SfaNI	GCATC	1 cut(s)	16
SfcI	CTRYAG	2 cut(s)	151, 424
Sse9I	AATT	1 cut(s)	276
SspMI	CTAG	1 cut(s)	357
StyD4I	CCNGG	1 cut(s)	445
StyI	CCWWGG	1 cut(s)	356
TaiI	ACGT	1 cut(s)	123
TaqI	TCGA	2 cut(s)	40, 124
TasI	AATT	1 cut(s)	276
TfiI	GAWTC	5 cut(s)	37, 137, 211, 264, 488
Tru1I	TTAA	2 cut(s)	68, 393
Tru9I	TTAA	2 cut(s)	68, 393
TscAI	CASTG	1 cut(s)	297
TseFI	GTSAC	1 cut(s)	61
TseI	GCWGC	2 cut(s)	184, 467
Tsp45I	GTSAC	1 cut(s)	61
TspDTI	ATGAA	2 cut(s)	183, 242
TspRI	CASTG	1 cut(s)	297
Van91I	CCANNNNNTGG	1 cut(s)	446
VneI	GTGCAC	2 cut(s)	116, 252
XcmI	CCANNNNNNNNNTGG	1 cut(s)	443
XmaJI	CCTAGG	1 cut(s)	356
XspI	CTAG	1 cut(s)	357

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