Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0002926

Physical Location & Seq

Genomic Coordinates Reverse (-)

55554912 .. 55556441

Gene Structure 1530 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG330200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGAGCCAAAGCCCCTCACGAGCCAGGAGGTTTCGCAGCAGCGAACGTTCATCTTACCGTGATGCCCCATATCCCAGGGAGCGCCGTGTTAATAGGAATGATTTTCTTTGCAACAAATGTAAACGACCAGGGCATTTTGCCAGGGATTGCCCAAATGTGACTGTCTGCAACAACTGTGGACTTCCTGGCCACATTGCTGCTGAATGCAACTCAACCACTACTTGTTGGAACTGCAAGGAGCCTGGACATCTTGCAAGCCAATGCCCCAACGATCCAGTCTGCCATATGTGCGGTAAGATGGGTCACCTTGCTCGTGATTGCTCAAGCCCATTTCTTCCATCCCATGATGCAAGGCTATGCAACAACTGCTACAAGCCAGGTCACATTGCAGTCACTTGCACCAACGAGAAGGCATGCAACAACTGCCGCAAGCCAGGCCACCTCGCCCGCGACTGCCCCAACGAACCCATCTGCAACATCTGCAACATATCAGGCCACGTGGCCCGTCACTGCCCCAAGTCAGGATCAAACATGGGAGGAGGAGGAGCAGGCCCTTTCCGCGACATCATCTGCCGTAACTGCGGCCAGCCAGGGCACGTCAGCCGCGAGTGTGTGTCCATTGTCATCTGCAACAACTGCGGCGGAAGGGGTCACCAAGCTTATGAGTGCCCTTCCGCCTTGATGTATGATCGCGGCGTGCGTAGGTATTGA

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

zf-CCHC zf-CCHC_3 zf-CCHC_4

Protein Analysis

236

Amino Acids

25.96

Weight (kDa)

8.96

Isoelectric Point (pI)

71.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCHC	PF00098	37 - 52	2.9e-06	Zinc knuckle
zf-CCHC	PF00098	74 - 90	2.8e-06	Zinc knuckle
zf-CCHC	PF00098	138 - 154	2.1e-06	Zinc knuckle
zf-CCHC	PF00098	190 - 204	8.9e-07	Zinc knuckle

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002926)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75560 AT1G75560
fragaria_vesca	FvH4_2g10323 FvH4_2g10323 FvH4_7g21972
malus_domestica	MD00G1040200.v1.1 MD01G1124300.v1.1 MD10G1063900.v1.1
prunus_persica	Prupe.2G231800_v2.0.a1 Prupe.2G231800_v2.0.a1 Prupe.2G231800_v2.0.a1 Prupe.2G231800_v2.0.a1 Prupe.2G231800_v2.0.a1 Prupe.2G231800_v2.0.a1 Prupe.2G231800_v2.0.a1 Prupe.2G231800_v2.0.a1 Prupe.8G085500_v2.0.a1
pyrus_communis	pycom01g15080 pycom05g04680 pycom10g04940
rosa_chinensis	RchiOBHm_Chr1g0366331 RchiOBHm_Chr6g0267601
rosa_roxburghii	Rroxscaffold_4G00289990 Rroxscaffold_4G00290250 Rroxscaffold_7G00200570
rosa_rugosa	Rorug01G0329000 Rorug06G0033800
rosa_samantha	Rh1AG337200 Rh1BG298700 Rh1CG314000 Rh1DG330200 Rh6AG155500 Rh6BG156800 Rh6CG152400 Rh6DG142000
rosa_wichuraiana	Rw1G029890 Rw6G013360 Rw6G013510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	4 cut(s)	450, 561, 606, 693
AclI	AACGTT	1 cut(s)	46
AclWI	GGATC	2 cut(s)	266, 532
AcoI	YGGCCR	2 cut(s)	187, 583
AcvI	CACGTG	1 cut(s)	499
AfiI	CCNNNNNNNGG	1 cut(s)	521
AjiI	CACGTC	1 cut(s)	598
AjnI	CCWGG	9 cut(s)	23, 74, 127, 140, 184, 241, 376, 433, 589
AluBI	AGCT	1 cut(s)	659
AluI	AGCT	1 cut(s)	659
AlwI	GGATC	2 cut(s)	266, 532
AoxI	GGCC	6 cut(s)	187, 436, 493, 501, 550, 583
ApeKI	GCWGC	3 cut(s)	36, 39, 197
AspLEI	GCGC	1 cut(s)	84
AspS9I	GGNCC	2 cut(s)	502, 551
AsuHPI	GGTGA	2 cut(s)	296, 644
BaeGI	GKGCMC	2 cut(s)	597, 671
BalI	TGGCCA	1 cut(s)	189
BauI	CACGAG	2 cut(s)	18, 312
BbrPI	CACGTG	1 cut(s)	499
BbvI	GCAGC	3 cut(s)	48, 51, 184
BccI	CCATC	3 cut(s)	292, 346, 476
BceAI	ACGGC	2 cut(s)	69, 558
BciT130I	CCWGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
BfoI	RGCGCY	1 cut(s)	85
BisI	GCNGC	8 cut(s)	37, 40, 198, 427, 583, 604, 640, 694
BlsI	GCNGC	8 cut(s)	38, 41, 199, 428, 584, 605, 641, 695
Bme1390I	CCNGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
BmgBI	CACGTC	1 cut(s)	598
BmgT120I	GGNCC	2 cut(s)	502, 551
BmiI	GGNNCC	1 cut(s)	240
BmrFI	CCNGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
BmsI	GCATC	2 cut(s)	52, 337
BpuEI	CTTGAG	1 cut(s)	307
BsaAI	YACGTR	1 cut(s)	499
BsaJI	CCNNGG	5 cut(s)	74, 75, 128, 141, 590
Bsc4I	CCNNNNNNNGG	1 cut(s)	521
Bse1I	ACTGG	1 cut(s)	275
Bse3DI	GCAATG	2 cut(s)	192, 384
BseBI	CCWGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
BseDI	CCNNGG	5 cut(s)	74, 75, 128, 141, 590
BseGI	GGATG	1 cut(s)	338
BseLI	CCNNNNNNNGG	1 cut(s)	521
BseMI	GCAATG	2 cut(s)	192, 384
BseNI	ACTGG	1 cut(s)	275
BseRI	GAGGAG	3 cut(s)	552, 555, 558
BseSI	GKGCMC	2 cut(s)	597, 671
BseXI	GCAGC	3 cut(s)	48, 51, 184
Bsh1236I	CGCG	4 cut(s)	450, 561, 606, 693
BshFI	GGCC	6 cut(s)	189, 438, 495, 503, 552, 585
BslI	CCNNNNNNNGG	1 cut(s)	521
BsmI	GAATGC	1 cut(s)	209
BsnI	GGCC	6 cut(s)	189, 438, 495, 503, 552, 585
Bsp1286I	GDGCHC	2 cut(s)	597, 671
Bsp143I	GATC	3 cut(s)	271, 524, 688
BspANI	GGCC	6 cut(s)	189, 438, 495, 503, 552, 585
BspFNI	CGCG	4 cut(s)	450, 561, 606, 693
BspLI	GGNNCC	1 cut(s)	240
BspPI	GGATC	2 cut(s)	266, 532
BsrDI	GCAATG	2 cut(s)	192, 384
BsrI	ACTGG	1 cut(s)	275
BssECI	CCNNGG	5 cut(s)	74, 75, 128, 141, 590
BssMI	GATC	3 cut(s)	271, 524, 688
BssSI	CACGAG	2 cut(s)	18, 312
Bst2BI	CACGAG	2 cut(s)	18, 312
Bst2UI	CCWGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
Bst4CI	ACNGT	3 cut(s)	59, 163, 176
BstAPI	GCANNNNNTGC	4 cut(s)	366, 423, 480, 636
BstBAI	YACGTR	1 cut(s)	499
BstC8I	GCNNGC	7 cut(s)	256, 415, 431, 448, 550, 587, 698
BstEII	GGTNACC	2 cut(s)	302, 650
BstF5I	GGATG	1 cut(s)	338
BstFNI	CGCG	4 cut(s)	450, 561, 606, 693
BstH2I	RGCGCY	1 cut(s)	85
BstHHI	GCGC	1 cut(s)	84
BstKTI	GATC	3 cut(s)	274, 527, 691
BstMBI	GATC	3 cut(s)	271, 524, 688
BstMWI	GCNNNNNNNGC	8 cut(s)	288, 366, 423, 435, 480, 558, 579, 636
BstNI	CCWGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
BstNSI	RCATGY	1 cut(s)	417
BstPI	GGTNACC	2 cut(s)	302, 650
BstSCI	CCNGG	9 cut(s)	23, 74, 127, 140, 184, 241, 376, 433, 589
BstSLI	GKGCMC	2 cut(s)	597, 671
BstUI	CGCG	4 cut(s)	450, 561, 606, 693
BstV1I	GCAGC	3 cut(s)	48, 51, 184
BsuRI	GGCC	6 cut(s)	189, 438, 495, 503, 552, 585
BtrI	CACGTC	1 cut(s)	598
BtsCI	GGATG	1 cut(s)	338
BtsI	GCAGTG	1 cut(s)	508
BtsIMutI	CAGTG	1 cut(s)	508
Cac8I	GCNNGC	7 cut(s)	256, 415, 431, 448, 550, 587, 698
CfoI	GCGC	1 cut(s)	84
Cfr13I	GGNCC	2 cut(s)	502, 551
CspCI	CAANNNNNGTGG	2 cut(s)	157, 192
CviAII	CATG	3 cut(s)	344, 414, 532
DpnI	GATC	3 cut(s)	273, 526, 690
DpnII	GATC	3 cut(s)	271, 524, 688
EaeI	YGGCCR	2 cut(s)	187, 583
EciI	GGCGGA	2 cut(s)	657, 664
Eco72I	CACGTG	1 cut(s)	499
Eco91I	GGTNACC	2 cut(s)	302, 650
EcoO109I	RGGNCCY	1 cut(s)	551
EcoO65I	GGTNACC	2 cut(s)	302, 650
EcoRII	CCWGG	9 cut(s)	23, 74, 127, 140, 184, 241, 376, 433, 589
FaeI	CATG	3 cut(s)	347, 417, 535
FatI	CATG	3 cut(s)	343, 413, 531
FauI	CCCGC	1 cut(s)	455
FauNDI	CATATG	1 cut(s)	285
Fnu4HI	GCNGC	8 cut(s)	37, 40, 198, 427, 583, 604, 640, 694
FokI	GGATG	1 cut(s)	325
Fsp4HI	GCNGC	8 cut(s)	37, 40, 198, 427, 583, 604, 640, 694
GlaI	GCGC	1 cut(s)	83
GluI	GCNGC	8 cut(s)	37, 40, 198, 427, 583, 604, 640, 694
HaeII	RGCGCY	1 cut(s)	85
HaeIII	GGCC	6 cut(s)	189, 438, 495, 503, 552, 585
HhaI	GCGC	1 cut(s)	84
Hin1II	CATG	3 cut(s)	347, 417, 535
Hin6I	GCGC	1 cut(s)	82
HinP1I	GCGC	1 cut(s)	82
HindIII	AAGCTT	1 cut(s)	657
HphI	GGTGA	2 cut(s)	296, 644
Hpy166II	GTNNAC	2 cut(s)	122, 179
Hpy188III	TCNNGA	3 cut(s)	18, 314, 522
Hpy8I	GTNNAC	2 cut(s)	122, 179
HpyAV	CCTTC	3 cut(s)	403, 639, 681
HpyCH4III	ACNGT	3 cut(s)	59, 163, 176
HpyCH4IV	ACGT	3 cut(s)	46, 498, 597
HpyF10VI	GCNNNNNNNGC	8 cut(s)	288, 366, 423, 435, 480, 558, 579, 636
HpySE526I	ACGT	3 cut(s)	46, 498, 597
Hsp92II	CATG	3 cut(s)	347, 417, 535
HspAI	GCGC	1 cut(s)	82
Kzo9I	GATC	3 cut(s)	271, 524, 688
LmnI	GCTCC	3 cut(s)	79, 238, 545
Lsp1109I	GCAGC	3 cut(s)	48, 51, 184
LweI	GCATC	2 cut(s)	52, 337
MaeII	ACGT	3 cut(s)	46, 498, 597
MaeIII	GTNAC	7 cut(s)	157, 302, 380, 391, 506, 575, 650
MalI	GATC	3 cut(s)	273, 526, 690
MboI	GATC	3 cut(s)	271, 524, 688
MboII	GAAGA	1 cut(s)	326
MhlI	GDGCHC	2 cut(s)	597, 671
MlsI	TGGCCA	1 cut(s)	189
MluNI	TGGCCA	1 cut(s)	189
MmeI	TCCRAC	1 cut(s)	206
MnlI	CCTC	6 cut(s)	21, 25, 452, 530, 533, 536
Mox20I	TGGCCA	1 cut(s)	189
MscI	TGGCCA	1 cut(s)	189
MseI	TTAA	1 cut(s)	90
Msp20I	TGGCCA	1 cut(s)	189
MspR9I	CCNGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
Mva1269I	GAATGC	1 cut(s)	209
MvaI	CCWGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
MvnI	CGCG	4 cut(s)	450, 561, 606, 693
MwoI	GCNNNNNNNGC	8 cut(s)	288, 366, 423, 435, 480, 558, 579, 636
NdeI	CATATG	1 cut(s)	285
NdeII	GATC	3 cut(s)	271, 524, 688
NlaIII	CATG	3 cut(s)	347, 417, 535
NlaIV	GGNNCC	1 cut(s)	240
NmuCI	GTSAC	6 cut(s)	157, 302, 380, 391, 506, 650
NspI	RCATGY	1 cut(s)	417
PaeI	GCATGC	1 cut(s)	417
PasI	CCCWGGG	1 cut(s)	75
PcsI	WCGNNNNNNNCGW	2 cut(s)	603, 697
PctI	GAATGC	1 cut(s)	209
PkrI	GCNGC	8 cut(s)	38, 41, 199, 428, 584, 605, 641, 695
PmaCI	CACGTG	1 cut(s)	499
PmlI	CACGTG	1 cut(s)	499
Ppu21I	YACGTR	1 cut(s)	499
Psp1406I	AACGTT	1 cut(s)	46
Psp6I	CCWGG	9 cut(s)	23, 74, 127, 140, 184, 241, 376, 433, 589
PspCI	CACGTG	1 cut(s)	499
PspEI	GGTNACC	2 cut(s)	302, 650
PspGI	CCWGG	9 cut(s)	23, 74, 127, 140, 184, 241, 376, 433, 589
PspN4I	GGNNCC	1 cut(s)	240
PspPI	GGNCC	2 cut(s)	502, 551
SaqAI	TTAA	1 cut(s)	90
SatI	GCNGC	8 cut(s)	37, 40, 198, 427, 583, 604, 640, 694
Sau3AI	GATC	3 cut(s)	271, 524, 688
Sau96I	GGNCC	2 cut(s)	502, 551
ScrFI	CCNGG	9 cut(s)	25, 76, 129, 142, 186, 243, 378, 435, 591
SduI	GDGCHC	2 cut(s)	597, 671
SetI	ASST	9 cut(s)	32, 49, 309, 382, 444, 501, 600, 661, 707
SfaNI	GCATC	2 cut(s)	52, 337
SmlI	CTYRAG	1 cut(s)	322
SmoI	CTYRAG	1 cut(s)	322
SphI	GCATGC	1 cut(s)	417
StyD4I	CCNGG	9 cut(s)	23, 74, 127, 140, 184, 241, 376, 433, 589
TaaI	ACNGT	3 cut(s)	59, 163, 176
TaiI	ACGT	3 cut(s)	49, 501, 600
TauI	GCSGC	5 cut(s)	429, 585, 606, 642, 696
Tru1I	TTAA	1 cut(s)	90
Tru9I	TTAA	1 cut(s)	90
TscAI	CASTG	1 cut(s)	515
TseFI	GTSAC	6 cut(s)	157, 302, 380, 391, 506, 650
TseI	GCWGC	3 cut(s)	36, 39, 197
Tsp45I	GTSAC	6 cut(s)	157, 302, 380, 391, 506, 650
TspDTI	ATGAA	1 cut(s)	39
TspRI	CASTG	1 cut(s)	515
XceI	RCATGY	1 cut(s)	417

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