Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0006208

Physical Location & Seq

Genomic Coordinates Forward (+)

49621261 .. 49624177

Gene Structure 2917 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00429320.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 582 bp

ATGGCTGATGCTAACGGTAACGCCATTGAGGCCAACGTGGTGGAAACAAAAGATGGAACCATTTCTGTGGCTTCTGCTTTTGCTGCGCATCAAGAAGTTGTACAGGATAGAGACCACAAGTTCTTAACACTAGCAGTTCAAGAAGCTTATAAGGGAGTTGACTGCGGAGATGGAGGGCCATTTGGTGCAGTTATTGTTCGCAATGATGAAGTAGTTGTCAGCTGTCACAACATGGTTCTGACACACACTGATCCAACTGCACATGCGGAGGTTACTGCTGTAAGAGAGGCCTGTAAGAAGCTGAATCAGATAGAGCTGTCAGACTGTGAAATATATGCATCTTGTGAGCCATGTCCAATGTGTTTCGGTGCTATTCATCTTTCAAGACTTAAGAGGTTGGTTTATGGAGCCAAAGCTGAAGCAGCTATTGCAATTGGGTTCGATGATTTCATTGCTGATGCATTGAGAGGCACTGCAGTTTATCAGAAGGCTCACATGGAGATTAAGAAAGCTGATGGGAACGGTGCACTTCTTGCTGAACAAGTATTTGAGAAAACAAAGACCAAGTTTTCCATGTATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

dCMP_cyt_deam_1

Protein Analysis

193

Amino Acids

20.8

Weight (kDa)

5.33

Isoelectric Point (pI)

27.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
dCMP_cyt_deam_1	PF00383	37 - 136	1.3e-26	Cytidine and deoxycytidylate deaminase zinc-binding region
MafB19-deam	PF14437	43 - 142	4.7e-20	MafB19-like deaminase

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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Publication-ready

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Orthologous Genes (Group: OG0006208)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05300 AT5G28050 AT5G28050 AT5G28050
fragaria_vesca	FvH4_6g03650
malus_domestica	MD04G1219800.v1.1 MD12G1236600.v1.1
prunus_persica	Prupe.1G103100_v2.0.a1 Prupe.6G339100_v2.0.a1 Prupe.6G339100_v2.0.a1 Prupe.6G339100_v2.0.a1 Prupe.6G339100_v2.0.a1
pyrus_communis	pycom04g19480 pycom12g21750
rosa_chinensis	RchiOBHm_Chr3g0452181
rosa_laevigata	RLG00000025620
rosa_multiflora	Rmu_sc0020870.1_g000006 Rmu_sc0042699.1_g000001
rosa_roxburghii	Rroxscaffold_164G00435980 Rroxscaffold_6G00429320
rosa_rugosa	Rorug02G0638900 Rorug02G0639000
rosa_samantha	Rh3AG040800 Rh3BG042600 Rh3CG040900 Rh3DG041800
rosa_wichuraiana	Rw3G003120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	150
Acc16I	TGCGCA	1 cut(s)	87
AciI	CCGC	2 cut(s)	165, 266
AclWI	GGATC	1 cut(s)	245
AcuI	CTGAAG	1 cut(s)	438
AfaI	GTAC	1 cut(s)	102
AflII	CTTAAG	1 cut(s)	389
AgsI	TTSAA	2 cut(s)	140, 384
AluBI	AGCT	7 cut(s)	146, 222, 301, 316, 416, 425, 512
AluI	AGCT	7 cut(s)	146, 222, 301, 316, 416, 425, 512
Alw21I	GWGCWC	1 cut(s)	529
Alw26I	GTCTC	1 cut(s)	105
Alw44I	GTGCAC	1 cut(s)	525
AlwI	GGATC	1 cut(s)	245
AoxI	GGCC	3 cut(s)	30, 176, 288
ApaLI	GTGCAC	1 cut(s)	525
ApeKI	GCWGC	2 cut(s)	83, 422
Asp700I	GAANNNNTTC	1 cut(s)	61
AspLEI	GCGC	1 cut(s)	88
AspS9I	GGNCC	1 cut(s)	176
BaeGI	GKGCMC	1 cut(s)	529
Bbv12I	GWGCWC	1 cut(s)	529
BbvI	GCAGC	2 cut(s)	70, 434
BccI	CCATC	3 cut(s)	47, 164, 509
BcoDI	GTCTC	1 cut(s)	105
BfaI	CTAG	1 cut(s)	131
BfmI	CTRYAG	1 cut(s)	474
BfrI	CTTAAG	1 cut(s)	389
BglI	GCCNNNNNGGC	1 cut(s)	29
BisI	GCNGC	2 cut(s)	84, 423
BlsI	GCNGC	2 cut(s)	85, 424
BmgT120I	GGNCC	1 cut(s)	176
BmiI	GGNNCC	2 cut(s)	58, 409
BmsI	GCATC	3 cut(s)	97, 347, 448
BsaI	GGTCTC	1 cut(s)	105
Bse3DI	GCAATG	2 cut(s)	208, 450
BseMI	GCAATG	2 cut(s)	208, 450
BseSI	GKGCMC	1 cut(s)	529
BseXI	GCAGC	2 cut(s)	70, 434
BsgI	GTGCAG	2 cut(s)	207, 243
BshFI	GGCC	3 cut(s)	32, 178, 290
BsiHKAI	GWGCWC	1 cut(s)	529
BsmAI	GTCTC	1 cut(s)	105
BsnI	GGCC	3 cut(s)	32, 178, 290
Bso31I	GGTCTC	1 cut(s)	105
Bsp1286I	GDGCHC	1 cut(s)	529
Bsp1407I	TGTACA	1 cut(s)	100
Bsp143I	GATC	1 cut(s)	250
BspACI	CCGC	2 cut(s)	165, 266
BspANI	GGCC	3 cut(s)	32, 178, 290
BspLI	GGNNCC	2 cut(s)	58, 409
BspMAI	CTGCAG	1 cut(s)	478
BspPI	GGATC	1 cut(s)	245
BspTI	CTTAAG	1 cut(s)	389
BspTNI	GGTCTC	1 cut(s)	105
BsrDI	GCAATG	2 cut(s)	208, 450
BsrGI	TGTACA	1 cut(s)	100
BssMI	GATC	1 cut(s)	250
Bst4CI	ACNGT	3 cut(s)	17, 326, 524
BstAFI	CTTAAG	1 cut(s)	389
BstAPI	GCANNNNNTGC	2 cut(s)	428, 533
BstAUI	TGTACA	1 cut(s)	100
BstHHI	GCGC	1 cut(s)	88
BstKTI	GATC	1 cut(s)	253
BstMAI	GTCTC	1 cut(s)	105
BstMBI	GATC	1 cut(s)	250
BstMWI	GCNNNNNNNGC	5 cut(s)	29, 83, 422, 428, 533
BstNSI	RCATGY	1 cut(s)	266
BstSFI	CTRYAG	1 cut(s)	474
BstSLI	GKGCMC	1 cut(s)	529
BstV1I	GCAGC	2 cut(s)	70, 434
BstXI	CCANNNNNNTGG	2 cut(s)	40, 67
BsuRI	GGCC	3 cut(s)	32, 178, 290
BtsI	GCAGTG	1 cut(s)	471
BtsIMutI	CAGTG	2 cut(s)	246, 471
CfoI	GCGC	1 cut(s)	88
Cfr13I	GGNCC	1 cut(s)	176
Csp6I	GTAC	1 cut(s)	101
CviAII	CATG	5 cut(s)	232, 263, 351, 496, 574
CviQI	GTAC	1 cut(s)	101
DpnI	GATC	1 cut(s)	252
DpnII	GATC	1 cut(s)	250
Eco147I	AGGCCT	1 cut(s)	290
Eco31I	GGTCTC	1 cut(s)	105
Eco57I	CTGAAG	1 cut(s)	438
EcoT22I	ATGCAT	2 cut(s)	340, 463
FaeI	CATG	5 cut(s)	235, 266, 354, 499, 577
FaiI	YATR	9 cut(s)	150, 233, 264, 334, 336, 352, 405, 497, 575
FatI	CATG	5 cut(s)	231, 262, 350, 495, 573
Fnu4HI	GCNGC	2 cut(s)	84, 423
Fsp4HI	GCNGC	2 cut(s)	84, 423
FspBI	CTAG	1 cut(s)	131
FspI	TGCGCA	1 cut(s)	87
GlaI	GCGC	1 cut(s)	87
GluI	GCNGC	2 cut(s)	84, 423
HaeIII	GGCC	3 cut(s)	32, 178, 290
HhaI	GCGC	1 cut(s)	88
Hin1II	CATG	5 cut(s)	235, 266, 354, 499, 577
Hin6I	GCGC	1 cut(s)	86
HinP1I	GCGC	1 cut(s)	86
HincII	GTYRAC	1 cut(s)	160
HindII	GTYRAC	1 cut(s)	160
HindIII	AAGCTT	1 cut(s)	144
HinfI	GANTC	1 cut(s)	304
Hpy166II	GTNNAC	2 cut(s)	160, 527
Hpy188I	TCNGA	4 cut(s)	240, 309, 322, 486
Hpy188III	TCNNGA	3 cut(s)	92, 140, 384
Hpy8I	GTNNAC	2 cut(s)	160, 527
HpyAV	CCTTC	1 cut(s)	481
HpyCH4III	ACNGT	3 cut(s)	17, 326, 524
HpyCH4IV	ACGT	1 cut(s)	36
HpyCH4V	TGCA	7 cut(s)	188, 260, 338, 431, 461, 476, 527
HpyF10VI	GCNNNNNNNGC	5 cut(s)	29, 83, 422, 428, 533
HpySE526I	ACGT	1 cut(s)	36
Hsp92II	CATG	5 cut(s)	235, 266, 354, 499, 577
HspAI	GCGC	1 cut(s)	86
Kzo9I	GATC	1 cut(s)	250
LmnI	GCTCC	1 cut(s)	407
LpnPI	CCDG	2 cut(s)	89, 304
Lsp1109I	GCAGC	2 cut(s)	70, 434
LweI	GCATC	3 cut(s)	97, 347, 448
MaeI	CTAG	1 cut(s)	131
MaeII	ACGT	1 cut(s)	36
MaeIII	GTNAC	3 cut(s)	17, 224, 271
MalI	GATC	1 cut(s)	252
MboI	GATC	1 cut(s)	250
MfeI	CAATTG	1 cut(s)	432
MhlI	GDGCHC	1 cut(s)	529
MluCI	AATT	1 cut(s)	432
MmeI	TCCRAC	1 cut(s)	278
MnlI	CCTC	6 cut(s)	22, 167, 262, 280, 387, 461
Mph1103I	ATGCAT	2 cut(s)	340, 463
MroXI	GAANNNNTTC	1 cut(s)	61
MseI	TTAA	3 cut(s)	125, 390, 504
MslI	CAYNNNNRTG	1 cut(s)	65
MspA1I	CMGCKG	1 cut(s)	222
MspCI	CTTAAG	1 cut(s)	389
MunI	CAATTG	1 cut(s)	432
MwoI	GCNNNNNNNGC	5 cut(s)	29, 83, 422, 428, 533
NdeII	GATC	1 cut(s)	250
NlaIII	CATG	5 cut(s)	235, 266, 354, 499, 577
NlaIV	GGNNCC	2 cut(s)	58, 409
NmuCI	GTSAC	1 cut(s)	224
NsbI	TGCGCA	1 cut(s)	87
NsiI	ATGCAT	2 cut(s)	340, 463
NspI	RCATGY	1 cut(s)	266
PceI	AGGCCT	1 cut(s)	290
PdmI	GAANNNNTTC	1 cut(s)	61
PfeI	GAWTC	1 cut(s)	304
PkrI	GCNGC	2 cut(s)	85, 424
PsiI	TTATAA	1 cut(s)	150
PspN4I	GGNNCC	2 cut(s)	58, 409
PspPI	GGNCC	1 cut(s)	176
PstI	CTGCAG	1 cut(s)	478
PvuII	CAGCTG	1 cut(s)	222
RsaI	GTAC	1 cut(s)	102
RsaNI	GTAC	1 cut(s)	101
RseI	CAYNNNNRTG	1 cut(s)	65
SaqAI	TTAA	3 cut(s)	125, 390, 504
SatI	GCNGC	2 cut(s)	84, 423
Sau3AI	GATC	1 cut(s)	250
Sau96I	GGNCC	1 cut(s)	176
SduI	GDGCHC	1 cut(s)	529
SfaNI	GCATC	3 cut(s)	97, 347, 448
SfcI	CTRYAG	1 cut(s)	474
SmiMI	CAYNNNNRTG	1 cut(s)	65
SmlI	CTYRAG	1 cut(s)	389
SmoI	CTYRAG	1 cut(s)	389
Sse9I	AATT	1 cut(s)	432
SseBI	AGGCCT	1 cut(s)	290
SsiI	CCGC	2 cut(s)	165, 266
SspMI	CTAG	1 cut(s)	131
StuI	AGGCCT	1 cut(s)	290
TaaI	ACNGT	3 cut(s)	17, 326, 524
TaiI	ACGT	1 cut(s)	39
TaqI	TCGA	1 cut(s)	441
TasI	AATT	1 cut(s)	432
TatI	WGTACW	1 cut(s)	100
TfiI	GAWTC	1 cut(s)	304
Tru1I	TTAA	3 cut(s)	125, 390, 504
Tru9I	TTAA	3 cut(s)	125, 390, 504
TscAI	CASTG	2 cut(s)	253, 478
TseFI	GTSAC	1 cut(s)	224
TseI	GCWGC	2 cut(s)	83, 422
Tsp45I	GTSAC	1 cut(s)	224
TspDTI	ATGAA	3 cut(s)	222, 365, 439
TspRI	CASTG	2 cut(s)	253, 478
Vha464I	CTTAAG	1 cut(s)	389
VneI	GTGCAC	1 cut(s)	525
XceI	RCATGY	1 cut(s)	266
XmnI	GAANNNNTTC	1 cut(s)	61
XspI	CTAG	1 cut(s)	131
Zsp2I	ATGCAT	2 cut(s)	340, 463

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