Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0019477

Physical Location & Seq

Genomic Coordinates Forward (+)

56921542 .. 56934216

Gene Structure 12675 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG401100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 828 bp

ATGAGTGCAGGTTCTGACTGGGAAGACTGGTACAATCAACAAGCATCACGCGCGGTGAATCAGGCTTTTGGACGTGTAATCCGTCATCGTCATGATTATGGAGCAATTATTTTTCTTGATGAAAGGTTTGTACAGCCAAATCGTCAATCTCAAATATCTCTCTGGATGCGACCTCATATCAAGTGTTACTCCAAATTTGGGGATGTGGTTTTTACATTAACCCGTTTCTTCCGGGATGGAGAAGCTCGGGGTCTTACAAAGCTGAATTTATTAACAACTGAAAAACAGGGTAAGATTGGGGCAGTTACTTTTTCAAGCTCTAGGGTTTTAACTGATCAGTCTGTGCCATGGAAGTGCTCAAATAACCTATTAGGAAATGAGAAAAAGCTTCTTTCCCTTAAGAGGGAGAATATAAAGTATCAAGATAGAAATGTAATTAATCTTACTGATGAATCAATATTAAATGAAAAGCGGAGTGAAGAACTGATAACGCCTTGTTCTGCGAAGAAGAGTAAGGTAGGCGCAGAACGCGATGCAGCACAAAATACTAACAATTCTATTGAGCATTCATCTCTTTCAAAAGATTTTGAATCGCTTGGCCTTCTTTCCACTAGAAGTTCAATGAGAAGCGAAAGCTCACATAGATCCAAGTCATCTGATAGAGAAACTACTCAAAATGCTCAAGCTGGTTCAAAGCTGCTGCACAAAGACAATAGTGTAACATCGAGTCCTGTGCCTTCTGGTGAAACAGGAAACGAGAGGTTCTCAATTTCCTGTTCAGGTGAGGGTTCTGATGATGTTTTCTCATTGCTGGTTACAAGATGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000018 GO:0000723 GO:0000725 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006282 GO:0006298 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009555 GO:0009892 GO:0009987 GO:0010569 GO:0010605 GO:0016043 GO:0019219 GO:0019222 GO:0022622 GO:0031323 GO:0031324 GO:0032200 GO:0032501 GO:0032502 GO:0033554 GO:0034641 GO:0034645 GO:0036297 GO:0042592 GO:0043007 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043570 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044444 GO:0044464 GO:0045005 GO:0045910 GO:0045934 GO:0046483 GO:0048229 GO:0048364 GO:0048519 GO:0048523 GO:0048583 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051276 GO:0051716 GO:0060249 GO:0060255 GO:0065007 GO:0065008 GO:0070716 GO:0071704 GO:0071840 GO:0080090 GO:0080134 GO:0080135 GO:0090304 GO:0099402 GO:1901360 GO:1901576 GO:2000779 GO:2001020

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD_2 Helicase_C_2

Protein Analysis

275

Amino Acids

30.86

Weight (kDa)

9.07

Isoelectric Point (pI)

45.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C_2	PF13307	5 - 58	1.9e-18	Helicase C-terminal domain

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: OG0019477)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000019683
rosa_multiflora	Rmu_sc0002170.1_g000010 Rmu_sc0043083.1_g000001
rosa_roxburghii	Rroxscaffold_2G00106740 Rroxscaffold_2G00106750
rosa_samantha	Rh2AG393600 Rh2BG401100 Rh2CG380300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	3 cut(s)	51, 53, 531
AciI	CCGC	2 cut(s)	53, 472
AclWI	GGATC	1 cut(s)	639
AcsI	RAATTY	2 cut(s)	194, 265
AfaI	GTAC	2 cut(s)	32, 132
AfiI	CCNNNNNNNGG	3 cut(s)	198, 402, 403
AflII	CTTAAG	1 cut(s)	398
AflIII	ACRYGT	1 cut(s)	73
AgsI	TTSAA	5 cut(s)	315, 579, 590, 621, 693
AjiI	CACGTC	1 cut(s)	74
AluBI	AGCT	7 cut(s)	245, 262, 318, 388, 636, 686, 697
AluI	AGCT	7 cut(s)	245, 262, 318, 388, 636, 686, 697
Alw21I	GWGCWC	1 cut(s)	359
AlwI	GGATC	1 cut(s)	639
AlwNI	CAGNNNCTG	1 cut(s)	14
Ama87I	CYCGRG	1 cut(s)	246
AoxI	GGCC	1 cut(s)	598
ApeKI	GCWGC	3 cut(s)	536, 697, 700
ApoI	RAATTY	2 cut(s)	194, 265
AseI	ATTAAT	1 cut(s)	438
AspLEI	GCGC	2 cut(s)	53, 524
AsuC2I	CCSGG	1 cut(s)	233
AsuHPI	GGTGA	3 cut(s)	67, 755, 794
AvaI	CYCGRG	1 cut(s)	246
BbsI	GAAGAC	1 cut(s)	30
Bbv12I	GWGCWC	1 cut(s)	359
BbvI	GCAGC	3 cut(s)	548, 684, 687
BccI	CCATC	1 cut(s)	230
BcgI	CGANNNNNNTGC	2 cut(s)	715, 749
BclI	TGATCA	1 cut(s)	334
BcnI	CCSGG	1 cut(s)	233
BfaI	CTAG	2 cut(s)	321, 612
BfrI	CTTAAG	1 cut(s)	398
BisI	GCNGC	3 cut(s)	537, 698, 701
BlsI	GCNGC	3 cut(s)	538, 699, 702
Bme1390I	CCNGG	1 cut(s)	233
BmeT110I	CYCGRG	1 cut(s)	246
BmgBI	CACGTC	1 cut(s)	74
BmrFI	CCNGG	1 cut(s)	233
BmrI	ACTGGG	1 cut(s)	28
BmsI	GCATC	3 cut(s)	53, 156, 523
BmuI	ACTGGG	1 cut(s)	28
BpiI	GAAGAC	1 cut(s)	30
BplI	GAGNNNNNCTC	2 cut(s)	749, 781
BpuEI	CTTGAG	1 cut(s)	666
BpuMI	CCSGG	1 cut(s)	233
BsaJI	CCNNGG	1 cut(s)	347
Bsc4I	CCNNNNNNNGG	3 cut(s)	198, 402, 403
Bse1I	ACTGG	2 cut(s)	23, 32
Bse3DI	GCAATG	1 cut(s)	806
BseDI	CCNNGG	1 cut(s)	347
BseGI	GGATG	3 cut(s)	171, 208, 241
BseLI	CCNNNNNNNGG	3 cut(s)	198, 402, 403
BseMI	GCAATG	1 cut(s)	806
BseNI	ACTGG	2 cut(s)	23, 32
BseXI	GCAGC	3 cut(s)	548, 684, 687
BsgI	GTGCAG	2 cut(s)	27, 686
Bsh1236I	CGCG	3 cut(s)	51, 53, 531
BshFI	GGCC	1 cut(s)	600
BsiHKAI	GWGCWC	1 cut(s)	359
BsiHKCI	CYCGRG	1 cut(s)	246
BsiSI	CCGG	1 cut(s)	232
BslI	CCNNNNNNNGG	3 cut(s)	198, 402, 403
BsmI	GAATGC	1 cut(s)	565
BsnI	GGCC	1 cut(s)	600
BsoBI	CYCGRG	1 cut(s)	246
Bsp1286I	GDGCHC	1 cut(s)	359
Bsp1407I	TGTACA	1 cut(s)	130
Bsp143I	GATC	2 cut(s)	334, 644
Bsp19I	CCATGG	1 cut(s)	347
BspACI	CCGC	2 cut(s)	53, 472
BspANI	GGCC	1 cut(s)	600
BspFNI	CGCG	3 cut(s)	51, 53, 531
BspHI	TCATGA	1 cut(s)	91
BspPI	GGATC	1 cut(s)	639
BspTI	CTTAAG	1 cut(s)	398
BsrDI	GCAATG	1 cut(s)	806
BsrGI	TGTACA	1 cut(s)	130
BsrI	ACTGG	2 cut(s)	23, 32
BssECI	CCNNGG	1 cut(s)	347
BssMI	GATC	2 cut(s)	334, 644
BssT1I	CCWWGG	1 cut(s)	347
Bst6I	CTCTTC	1 cut(s)	503
BstAFI	CTTAAG	1 cut(s)	398
BstAUI	TGTACA	1 cut(s)	130
BstDSI	CCRYGG	1 cut(s)	347
BstF5I	GGATG	3 cut(s)	171, 208, 241
BstFNI	CGCG	3 cut(s)	51, 53, 531
BstHHI	GCGC	2 cut(s)	53, 524
BstKTI	GATC	2 cut(s)	337, 647
BstMBI	GATC	2 cut(s)	334, 644
BstMWI	GCNNNNNNNGC	2 cut(s)	50, 528
BstSCI	CCNGG	1 cut(s)	231
BstUI	CGCG	3 cut(s)	51, 53, 531
BstV1I	GCAGC	3 cut(s)	548, 684, 687
BstV2I	GAAGAC	1 cut(s)	30
BstX2I	RGATCY	1 cut(s)	644
BstYI	RGATCY	1 cut(s)	644
BsuRI	GGCC	1 cut(s)	600
BtgI	CCRYGG	1 cut(s)	347
BtgZI	GCGATG	1 cut(s)	546
BtrI	CACGTC	1 cut(s)	74
BtsCI	GGATG	3 cut(s)	171, 208, 241
CaiI	CAGNNNCTG	1 cut(s)	14
CciI	TCATGA	1 cut(s)	91
CfoI	GCGC	2 cut(s)	53, 524
Csp6I	GTAC	2 cut(s)	31, 131
CviAII	CATG	2 cut(s)	92, 348
CviQI	GTAC	2 cut(s)	31, 131
DpnI	GATC	2 cut(s)	336, 646
DpnII	GATC	2 cut(s)	334, 644
Eam1104I	CTCTTC	1 cut(s)	503
EarI	CTCTTC	1 cut(s)	503
Eco130I	CCWWGG	1 cut(s)	347
Eco88I	CYCGRG	1 cut(s)	246
EcoT14I	CCWWGG	1 cut(s)	347
ErhI	CCWWGG	1 cut(s)	347
FaeI	CATG	2 cut(s)	95, 351
FaiI	YATR	6 cut(s)	93, 99, 177, 349, 413, 642
FatI	CATG	2 cut(s)	91, 347
FbaI	TGATCA	1 cut(s)	334
Fnu4HI	GCNGC	3 cut(s)	537, 698, 701
FokI	GGATG	3 cut(s)	178, 215, 248
Fsp4HI	GCNGC	3 cut(s)	537, 698, 701
FspBI	CTAG	2 cut(s)	321, 612
GlaI	GCGC	2 cut(s)	52, 523
GluI	GCNGC	3 cut(s)	537, 698, 701
HaeIII	GGCC	1 cut(s)	600
HapII	CCGG	1 cut(s)	232
HhaI	GCGC	2 cut(s)	53, 524
Hin1II	CATG	2 cut(s)	95, 351
Hin6I	GCGC	2 cut(s)	51, 522
HinP1I	GCGC	2 cut(s)	51, 522
HindIII	AAGCTT	1 cut(s)	386
HinfI	GANTC	4 cut(s)	58, 452, 590, 727
HpaII	CCGG	1 cut(s)	232
HphI	GGTGA	3 cut(s)	67, 755, 794
Hpy188I	TCNGA	3 cut(s)	16, 658, 793
Hpy188III	TCNNGA	4 cut(s)	92, 116, 163, 422
HpyAV	CCTTC	2 cut(s)	611, 747
HpyCH4IV	ACGT	1 cut(s)	73
HpyCH4V	TGCA	3 cut(s)	8, 536, 703
HpyF10VI	GCNNNNNNNGC	2 cut(s)	50, 528
HpySE526I	ACGT	1 cut(s)	73
Hsp92II	CATG	2 cut(s)	95, 351
HspAI	GCGC	2 cut(s)	51, 522
Ksp22I	TGATCA	1 cut(s)	334
Kzo9I	GATC	2 cut(s)	334, 644
LmnI	GCTCC	1 cut(s)	101
Lsp1109I	GCAGC	3 cut(s)	548, 684, 687
LweI	GCATC	3 cut(s)	53, 156, 523
MaeI	CTAG	2 cut(s)	321, 612
MaeII	ACGT	1 cut(s)	73
MaeIII	GTNAC	4 cut(s)	185, 304, 718, 814
MalI	GATC	2 cut(s)	336, 646
MboI	GATC	2 cut(s)	334, 644
MboII	GAAGA	5 cut(s)	35, 220, 491, 517, 520
MflI	RGATCY	1 cut(s)	644
MhlI	GDGCHC	1 cut(s)	359
MluCI	AATT	6 cut(s)	105, 194, 265, 435, 553, 768
MlyI	GAGTC	1 cut(s)	736
MnlI	CCTC	4 cut(s)	183, 396, 753, 778
MseI	TTAA	7 cut(s)	218, 272, 329, 399, 438, 461, 826
MslI	CAYNNNNRTG	3 cut(s)	90, 96, 352
MspCI	CTTAAG	1 cut(s)	398
MspI	CCGG	1 cut(s)	232
MspR9I	CCNGG	1 cut(s)	233
Mva1269I	GAATGC	1 cut(s)	565
MvnI	CGCG	3 cut(s)	51, 53, 531
MwoI	GCNNNNNNNGC	2 cut(s)	50, 528
NciI	CCSGG	1 cut(s)	233
NcoI	CCATGG	1 cut(s)	347
NdeII	GATC	2 cut(s)	334, 644
NlaIII	CATG	2 cut(s)	95, 351
PagI	TCATGA	1 cut(s)	91
PcsI	WCGNNNNNNNCGW	1 cut(s)	79
PctI	GAATGC	1 cut(s)	565
PfeI	GAWTC	3 cut(s)	58, 452, 590
PfoI	TCCNGGA	1 cut(s)	231
PkrI	GCNGC	3 cut(s)	538, 699, 702
PleI	GAGTC	1 cut(s)	735
PpsI	GAGTC	1 cut(s)	735
PshBI	ATTAAT	1 cut(s)	438
PstNI	CAGNNNCTG	1 cut(s)	14
PsuI	RGATCY	1 cut(s)	644
RsaI	GTAC	2 cut(s)	32, 132
RsaNI	GTAC	2 cut(s)	31, 131
RseI	CAYNNNNRTG	3 cut(s)	90, 96, 352
SaqAI	TTAA	7 cut(s)	218, 272, 329, 399, 438, 461, 826
SatI	GCNGC	3 cut(s)	537, 698, 701
Sau3AI	GATC	2 cut(s)	334, 644
SchI	GAGTC	1 cut(s)	736
ScrFI	CCNGG	1 cut(s)	233
SduI	GDGCHC	1 cut(s)	359
SfaNI	GCATC	3 cut(s)	53, 156, 523
SmiMI	CAYNNNNRTG	3 cut(s)	90, 96, 352
SmlI	CTYRAG	2 cut(s)	398, 681
SmoI	CTYRAG	2 cut(s)	398, 681
Sse9I	AATT	6 cut(s)	105, 194, 265, 435, 553, 768
SsiI	CCGC	2 cut(s)	53, 472
SspI	AATATT	1 cut(s)	459
SspMI	CTAG	2 cut(s)	321, 612
StyD4I	CCNGG	1 cut(s)	231
StyI	CCWWGG	1 cut(s)	347
TaiI	ACGT	1 cut(s)	76
TaqI	TCGA	1 cut(s)	725
TasI	AATT	6 cut(s)	105, 194, 265, 435, 553, 768
TatI	WGTACW	1 cut(s)	130
TfiI	GAWTC	3 cut(s)	58, 452, 590
Tru1I	TTAA	7 cut(s)	218, 272, 329, 399, 438, 461, 826
Tru9I	TTAA	7 cut(s)	218, 272, 329, 399, 438, 461, 826
TseI	GCWGC	3 cut(s)	536, 697, 700
TspDTI	ATGAA	4 cut(s)	135, 465, 480, 558
TspGWI	ACGGA	1 cut(s)	71
Vha464I	CTTAAG	1 cut(s)	398
VspI	ATTAAT	1 cut(s)	438
XapI	RAATTY	2 cut(s)	194, 265
XspI	CTAG	2 cut(s)	321, 612

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