Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0016959

Physical Location & Seq

Genomic Coordinates Forward (+)

461986 .. 463843

Gene Structure 1858 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG006800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGCTGTCAATTTGTGTTCTTGCCACTGGTTGGGATACACCATCCTACCCGTGTATATTAGACGCATGTCAAGGAATCCTACGCTCTATGTTTTGGACTTTGGAAGCTAATGTACTCACCCCCACAGATCTTACATTGGAGGAGAGGCGAGCTGATTTGATCCATTCTGCTGCAACCATCTTGGAGAAGAACAATTTGATCAAGTATGACACAAAAAGTGGATATTTCCAGGTCACAGACTTGGGTCGCATTGCTAGCCATTACTACATAACTCATGGGACAATATCGACATATAATGAGCATTTGAAGCCAACTATGGGGGATATTGAACTTTATCAATTGTTCTCCTTCAGTGAAGAGTTCAAGTATGTCACTGTGCGGCCGGATGAAAATATGGAACTTGTAAAACTATCGGAATGTGTTCCCATTCCGGTCAAGGAGAGCCTGAAAGATCCCAGTTGCAAGATTAATGTTTTGCTGCAAGCATATATTGCACAGCTGAAATTTGAAGGGTTTTCATTGACACAAGATATGGTTTTTATTACGCAGAGTGCTGGGCGTCTTGTACGAGCTCTTTTCGAGATCGTTTTGAAACGAGGATGGGCTCAACTTGCAGACAAGGCTTTGAACTTGTGTAAAATGGTTAGCAAGAGGATGTGGAGTGTCCAAATACTCTTCGCCAATTCCATGGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000354 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005682 GO:0005911 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009506 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0022613 GO:0022618 GO:0030054 GO:0030532 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0042623 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0046483 GO:0046540 GO:0055044 GO:0065003 GO:0070013 GO:0070035 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097525 GO:0097526 GO:0120114 GO:0140098 GO:1901360 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DEAD Helicase_C Sec63

Protein Analysis

231

Amino Acids

26.32

Weight (kDa)

5.86

Isoelectric Point (pI)

35.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sec63	PF02889	79 - 221	9.7e-58	Sec63 Brl 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: OG0016959)

Species	Orthologous Gene IDs
pyrus_communis	pycom04g21220 pycom12g23610
rosa_chinensis	RchiOBHm_Chr3g0448021
rosa_multiflora	Rmu_sc0005582.1_g000010 Rmu_sc0005969.1_g000017
rosa_rugosa	Rorug02G0607800
rosa_samantha	Rh3AG006900 Rh3AG007000 Rh3BG006600 Rh3BG006700 Rh3CG006800 Rh3CG006900 Rh3DG007200 Rh3DG007300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	30
AciI	CCGC	1 cut(s)	379
AclWI	GGATC	2 cut(s)	154, 446
AcoI	YGGCCR	1 cut(s)	380
AcsI	RAATTY	1 cut(s)	503
AcuI	CTGAAG	1 cut(s)	334
AcyI	GRCGYC	1 cut(s)	559
AfaI	GTAC	2 cut(s)	114, 567
AfiI	CCNNNNNNNGG	2 cut(s)	30, 317
AgsI	TTSAA	6 cut(s)	307, 329, 364, 509, 592, 628
AjnI	CCWGG	1 cut(s)	228
AluBI	AGCT	4 cut(s)	107, 152, 499, 572
AluI	AGCT	4 cut(s)	107, 152, 499, 572
Alw21I	GWGCWC	1 cut(s)	574
AlwI	GGATC	2 cut(s)	154, 446
AoxI	GGCC	1 cut(s)	380
ApeKI	GCWGC	2 cut(s)	170, 478
ApoI	RAATTY	1 cut(s)	503
AseI	ATTAAT	1 cut(s)	468
Asp700I	GAANNNNTTC	1 cut(s)	420
AsuHPI	GGTGA	1 cut(s)	109
AsuNHI	GCTAGC	1 cut(s)	254
BanII	GRGCYC	2 cut(s)	574, 607
BarI	GAAGNNNNNNTAC	2 cut(s)	96, 128
Bbv12I	GWGCWC	1 cut(s)	574
BbvI	GCAGC	2 cut(s)	157, 465
BccI	CCATC	3 cut(s)	49, 185, 594
BciT130I	CCWGG	1 cut(s)	230
BciVI	GTATCC	1 cut(s)	28
BclI	TGATCA	1 cut(s)	198
BfaI	CTAG	1 cut(s)	255
BfuI	GTATCC	1 cut(s)	28
BglII	AGATCT	1 cut(s)	127
BisI	GCNGC	3 cut(s)	171, 380, 479
BlsI	GCNGC	3 cut(s)	172, 381, 480
Bme1390I	CCNGG	1 cut(s)	230
BmrFI	CCNGG	1 cut(s)	230
BmrI	ACTGGG	1 cut(s)	450
BmtI	GCTAGC	1 cut(s)	258
BmuI	ACTGGG	1 cut(s)	450
BoxI	GACNNNNGTC	2 cut(s)	66, 243
BsaHI	GRCGYC	1 cut(s)	559
BsaJI	CCNNGG	1 cut(s)	687
BsaWI	WCCGGW	1 cut(s)	430
Bsc4I	CCNNNNNNNGG	2 cut(s)	30, 317
Bse1I	ACTGG	2 cut(s)	31, 456
Bse3DI	GCAATG	1 cut(s)	249
BseBI	CCWGG	1 cut(s)	230
BseDI	CCNNGG	1 cut(s)	687
BseGI	GGATG	4 cut(s)	41, 391, 605, 660
BseLI	CCNNNNNNNGG	2 cut(s)	30, 317
BseMI	GCAATG	1 cut(s)	249
BseNI	ACTGG	2 cut(s)	31, 456
BseRI	GAGGAG	1 cut(s)	155
BseX3I	CGGCCG	1 cut(s)	380
BseXI	GCAGC	2 cut(s)	157, 465
BseYI	CCCAGC	1 cut(s)	554
Bsh1285I	CGRYCG	1 cut(s)	383
BshFI	GGCC	1 cut(s)	382
BsiEI	CGRYCG	1 cut(s)	383
BsiHKAI	GWGCWC	1 cut(s)	574
BsiSI	CCGG	2 cut(s)	383, 431
BslFI	GGGAC	1 cut(s)	292
BslI	CCNNNNNNNGG	2 cut(s)	30, 317
BsmFI	GGGAC	1 cut(s)	292
BsnI	GGCC	1 cut(s)	382
Bsp1286I	GDGCHC	2 cut(s)	574, 607
Bsp143I	GATC	5 cut(s)	127, 159, 198, 451, 582
Bsp19I	CCATGG	1 cut(s)	687
BspACI	CCGC	1 cut(s)	379
BspANI	GGCC	1 cut(s)	382
BspOI	GCTAGC	1 cut(s)	258
BspPI	GGATC	2 cut(s)	154, 446
BsrDI	GCAATG	1 cut(s)	249
BsrI	ACTGG	2 cut(s)	31, 456
BssECI	CCNNGG	1 cut(s)	687
BssMI	GATC	5 cut(s)	127, 159, 198, 451, 582
BssNI	GRCGYC	1 cut(s)	559
BssT1I	CCWWGG	1 cut(s)	687
Bst2UI	CCWGG	1 cut(s)	230
Bst4CI	ACNGT	1 cut(s)	376
Bst6I	CTCTTC	2 cut(s)	351, 680
BstACI	GRCGYC	1 cut(s)	559
BstAPI	GCANNNNNTGC	1 cut(s)	491
BstC8I	GCNNGC	3 cut(s)	150, 256, 483
BstDSI	CCRYGG	1 cut(s)	687
BstF5I	GGATG	4 cut(s)	41, 391, 605, 660
BstKTI	GATC	5 cut(s)	130, 162, 201, 454, 585
BstMBI	GATC	5 cut(s)	127, 159, 198, 451, 582
BstMCI	CGRYCG	1 cut(s)	383
BstMWI	GCNNNNNNNGC	5 cut(s)	255, 307, 491, 611, 620
BstNI	CCWGG	1 cut(s)	230
BstNSI	RCATGY	1 cut(s)	69
BstPAI	GACNNNNGTC	2 cut(s)	66, 243
BstSCI	CCNGG	1 cut(s)	228
BstV1I	GCAGC	2 cut(s)	157, 465
BstX2I	RGATCY	2 cut(s)	127, 451
BstXI	CCANNNNNNTGG	1 cut(s)	688
BstYI	RGATCY	2 cut(s)	127, 451
BstZI	CGGCCG	1 cut(s)	380
BsuI	GTATCC	1 cut(s)	28
BsuRI	GGCC	1 cut(s)	382
BtgI	CCRYGG	1 cut(s)	687
BtsCI	GGATG	4 cut(s)	41, 391, 605, 660
BtsIMutI	CAGTG	3 cut(s)	24, 358, 372
Cac8I	GCNNGC	3 cut(s)	150, 256, 483
CseI	GACGC	2 cut(s)	71, 548
Csp6I	GTAC	2 cut(s)	113, 566
CviAII	CATG	3 cut(s)	66, 275, 688
CviQI	GTAC	2 cut(s)	113, 566
DpnI	GATC	5 cut(s)	129, 161, 200, 453, 584
DpnII	GATC	5 cut(s)	127, 159, 198, 451, 582
EaeI	YGGCCR	1 cut(s)	380
EagI	CGGCCG	1 cut(s)	380
Eam1104I	CTCTTC	2 cut(s)	351, 680
EarI	CTCTTC	2 cut(s)	351, 680
Ecl136II	GAGCTC	1 cut(s)	572
EclXI	CGGCCG	1 cut(s)	380
Eco130I	CCWWGG	1 cut(s)	687
Eco24I	GRGCYC	2 cut(s)	574, 607
Eco52I	CGGCCG	1 cut(s)	380
Eco53kI	GAGCTC	1 cut(s)	572
Eco57I	CTGAAG	1 cut(s)	334
EcoICRI	GAGCTC	1 cut(s)	572
EcoRII	CCWGG	1 cut(s)	228
EcoT14I	CCWWGG	1 cut(s)	687
EcoT38I	GRGCYC	2 cut(s)	574, 607
ErhI	CCWWGG	1 cut(s)	687
FaeI	CATG	3 cut(s)	69, 278, 691
FaqI	GGGAC	1 cut(s)	292
FatI	CATG	3 cut(s)	65, 274, 687
FbaI	TGATCA	1 cut(s)	198
Fnu4HI	GCNGC	3 cut(s)	171, 380, 479
FokI	GGATG	4 cut(s)	28, 398, 612, 667
FriOI	GRGCYC	2 cut(s)	574, 607
Fsp4HI	GCNGC	3 cut(s)	171, 380, 479
FspBI	CTAG	1 cut(s)	255
GluI	GCNGC	3 cut(s)	171, 380, 479
GsaI	CCCAGC	1 cut(s)	558
HaeIII	GGCC	1 cut(s)	382
HapII	CCGG	2 cut(s)	383, 431
HgaI	GACGC	2 cut(s)	71, 548
Hin1I	GRCGYC	1 cut(s)	559
Hin1II	CATG	3 cut(s)	69, 278, 691
HinfI	GANTC	1 cut(s)	75
HpaII	CCGG	2 cut(s)	383, 431
HphI	GGTGA	1 cut(s)	109
Hpy188I	TCNGA	1 cut(s)	415
Hpy188III	TCNNGA	1 cut(s)	580
HpyAV	CCTTC	2 cut(s)	358, 503
HpyCH4III	ACNGT	1 cut(s)	376
HpyCH4V	TGCA	5 cut(s)	173, 462, 481, 494, 614
HpyF10VI	GCNNNNNNNGC	5 cut(s)	255, 307, 491, 611, 620
Hsp92I	GRCGYC	1 cut(s)	559
Hsp92II	CATG	3 cut(s)	69, 278, 691
Ksp22I	TGATCA	1 cut(s)	198
Kzo9I	GATC	5 cut(s)	127, 159, 198, 451, 582
LpnPI	CCDG	8 cut(s)	12, 215, 242, 396, 444, 458, 469, 540
Lsp1109I	GCAGC	2 cut(s)	157, 465
MaeI	CTAG	1 cut(s)	255
MaeIII	GTNAC	2 cut(s)	232, 370
MalI	GATC	5 cut(s)	129, 161, 200, 453, 584
MboI	GATC	5 cut(s)	127, 159, 198, 451, 582
MboII	GAAGA	3 cut(s)	199, 368, 667
MfeI	CAATTG	1 cut(s)	338
MflI	RGATCY	2 cut(s)	127, 451
MhlI	GDGCHC	2 cut(s)	574, 607
MluCI	AATT	5 cut(s)	9, 193, 338, 503, 682
MnlI	CCTC	4 cut(s)	133, 138, 590, 645
MroXI	GAANNNNTTC	1 cut(s)	420
MseI	TTAA	1 cut(s)	468
MspA1I	CMGCKG	1 cut(s)	499
MspI	CCGG	2 cut(s)	383, 431
MspR9I	CCNGG	1 cut(s)	230
MunI	CAATTG	1 cut(s)	338
MvaI	CCWGG	1 cut(s)	230
MwoI	GCNNNNNNNGC	5 cut(s)	255, 307, 491, 611, 620
NcoI	CCATGG	1 cut(s)	687
NdeII	GATC	5 cut(s)	127, 159, 198, 451, 582
NheI	GCTAGC	1 cut(s)	254
NlaIII	CATG	3 cut(s)	69, 278, 691
NmuCI	GTSAC	2 cut(s)	232, 370
NspI	RCATGY	1 cut(s)	69
PdmI	GAANNNNTTC	1 cut(s)	420
PfeI	GAWTC	1 cut(s)	75
PflMI	CCANNNNNTGG	1 cut(s)	30
PkrI	GCNGC	3 cut(s)	172, 381, 480
PshAI	GACNNNNGTC	2 cut(s)	66, 243
PshBI	ATTAAT	1 cut(s)	468
Psp124BI	GAGCTC	1 cut(s)	574
Psp6I	CCWGG	1 cut(s)	228
PspFI	CCCAGC	1 cut(s)	554
PspGI	CCWGG	1 cut(s)	228
PsuI	RGATCY	2 cut(s)	127, 451
PvuII	CAGCTG	1 cut(s)	499
RsaI	GTAC	2 cut(s)	114, 567
RsaNI	GTAC	2 cut(s)	113, 566
SacI	GAGCTC	1 cut(s)	574
SaqAI	TTAA	1 cut(s)	468
SatI	GCNGC	3 cut(s)	171, 380, 479
Sau3AI	GATC	5 cut(s)	127, 159, 198, 451, 582
ScrFI	CCNGG	1 cut(s)	230
SduI	GDGCHC	2 cut(s)	574, 607
SetI	ASST	5 cut(s)	109, 154, 234, 501, 574
Sse9I	AATT	5 cut(s)	9, 193, 338, 503, 682
SsiI	CCGC	1 cut(s)	379
SspMI	CTAG	1 cut(s)	255
SstI	GAGCTC	1 cut(s)	574
StyD4I	CCNGG	1 cut(s)	228
StyI	CCWWGG	1 cut(s)	687
TaaI	ACNGT	1 cut(s)	376
TaqI	TCGA	2 cut(s)	287, 579
TasI	AATT	5 cut(s)	9, 193, 338, 503, 682
TatI	WGTACW	1 cut(s)	112
TauI	GCSGC	1 cut(s)	382
TfiI	GAWTC	1 cut(s)	75
Tru1I	TTAA	1 cut(s)	468
Tru9I	TTAA	1 cut(s)	468
TscAI	CASTG	3 cut(s)	31, 358, 379
TseFI	GTSAC	2 cut(s)	232, 370
TseI	GCWGC	2 cut(s)	170, 478
Tsp45I	GTSAC	2 cut(s)	232, 370
TspDTI	ATGAA	2 cut(s)	402, 507
TspRI	CASTG	3 cut(s)	31, 358, 379
Van91I	CCANNNNNTGG	1 cut(s)	30
VspI	ATTAAT	1 cut(s)	468
XapI	RAATTY	1 cut(s)	503
XceI	RCATGY	1 cut(s)	69
XmnI	GAANNNNTTC	1 cut(s)	420
XspI	CTAG	1 cut(s)	255

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