Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0001341

Physical Location & Seq

Genomic Coordinates Forward (+)

41561621 .. 41563809

Gene Structure 2189 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00115330.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGGCAACTCTGTCTCCACCGACGTTGTTTCAGGAGAAGGAAAATCTTGATCTCAATGGTAATCTTTCATTTCCTTCTTCTTTTCATGTTTCAAATTGTTCTTCTCACCCTAATTTTGCTAGAGCACTGAGTTTCAATTCCAACCCCAGAAAGCTCCACTTGGTTCTTGATCTTGATCACACACTCCTCCACACCACTCGACTCTGTAATCTGACGCCTGAAGAAGACTATCTCAAGATCGGAACCCATCCTTATCAAGATGTTTTCGTGCTTGAAACTGTGATCACCAAGCTCAGGCCCTTTGTCTGGAGATTCTTGGATGAAGCCAGCAAGATGTTTGAGCTGTATATATACACAAAGGGTAACCGGTACTATGCGGGTCTAATGGCTTCCCTGCTTGATCCTAGGAAGGATATTTTCACTTCCGTTTCTAGGGTCATATCGTGCGAGGATCACGGAATCGTGGGGCGATATAAGAGTCTGGATGCTGTGGTTGGCTGCAATTATTCTAATGTTTTGATCCTTGATGATACAGAAGAGGCATGGACAAAGGAAAGCCGGGACAATCTAATCGTTGTCGACAAGTATTGTTTCTTTAGGCACAAAATGGGCCTAGCTAAATGCAAGTCTTATGCTGAGTTAAAGACTGATGAATGTGGATATCTGGCATCACTTCTTGAAGTTCTTAAGGTTGTTAGGCATCCTGGAAACTGTTTCTGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0004721 GO:0004722 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006355 GO:0006357 GO:0006464 GO:0006470 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006970 GO:0008022 GO:0008150 GO:0008152 GO:0008420 GO:0009628 GO:0009651 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016311 GO:0016591 GO:0016787 GO:0016788 GO:0016791 GO:0019219 GO:0019222 GO:0019538 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0036211 GO:0042578 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070940 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BRCT NIF PTCB-BRCT

Protein Analysis

240

Amino Acids

27.46

Weight (kDa)

6.5

Isoelectric Point (pI)

27.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	53 - 211	1.8e-23	NLI interacting factor-like phosphatase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001341)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g10330
rosa_chinensis	RchiOBHm_Chr2g0124471 RchiOBHm_Chr2g0128771 RchiOBHm_Chr3g0488911 RchiOBHm_Chr7g0210561 RchiOBHm_Chr7g0211191 RchiOBHm_Chr7g0211371 RchiOBHm_Chr7g0211471 RchiOBHm_Chr7g0211491
rosa_laevigata	RLG00000003001 RLG00000018803 RLG00000022902
rosa_multiflora	Rmu_co8429473.1_g000001 Rmu_sc0001208.1_g000002 Rmu_sc0001303.1_g000009 Rmu_sc0002283.1_g000067 Rmu_sc0005514.1_g000010 Rmu_sc0007204.1_g000013 Rmu_sc0018619.1_g000009
rosa_roxburghii	Rroxscaffold_1G00018290 Rroxscaffold_2G00115300 Rroxscaffold_2G00115330 Rroxscaffold_2G00118520 Rroxscaffold_2G00118830 Rroxscaffold_2G00119890 Rroxscaffold_3G00247870 Rroxscaffold_7G00186360 Rroxscaffold_7G00207860
rosa_rugosa	Rorug02G0280300 Rorug02G0280400 Rorug07G0125400
rosa_samantha	Rh2AG309500 Rh2AG309600 Rh2BG318300 Rh2BG341600 Rh2CG296400 Rh2CG301400 Rh2DG333500 Rh2DG358300 Rh3AG290600 Rh3DG323500 Rh7AG256900 Rh7AG257900 Rh7BG252000 Rh7CG273400 Rh7CG274500 Rh7CG274600 Rh7DG263300 Rh7DG263400 Rh7DG263900 Rh7DG265100 Rh7DG272000
rosa_wichuraiana	Rw2G025010 Rw7G022690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	579
AciI	CCGC	1 cut(s)	377
AclWI	GGATC	3 cut(s)	395, 459, 514
AcuI	CTGAAG	1 cut(s)	240
AcyI	GRCGYC	1 cut(s)	215
AfaI	GTAC	1 cut(s)	371
AfiI	CCNNNNNNNGG	3 cut(s)	294, 306, 432
AflII	CTTAAG	1 cut(s)	686
AgeI	ACCGGT	1 cut(s)	366
AgsI	TTSAA	4 cut(s)	93, 136, 275, 680
AjnI	CCWGG	1 cut(s)	703
AluBI	AGCT	4 cut(s)	154, 292, 343, 617
AluI	AGCT	4 cut(s)	154, 292, 343, 617
Alw21I	GWGCWC	1 cut(s)	127
Alw26I	GTCTC	1 cut(s)	18
AlwI	GGATC	3 cut(s)	395, 459, 514
AoxI	GGCC	2 cut(s)	296, 610
ApeKI	GCWGC	1 cut(s)	498
AsiGI	ACCGGT	1 cut(s)	366
AspA2I	CCTAGG	1 cut(s)	404
AspS9I	GGNCC	2 cut(s)	297, 610
AsuC2I	CCSGG	1 cut(s)	560
AsuHPI	GGTGA	2 cut(s)	98, 277
AvrII	CCTAGG	1 cut(s)	404
BbsI	GAAGAC	1 cut(s)	231
Bbv12I	GWGCWC	1 cut(s)	127
BbvI	GCAGC	1 cut(s)	485
BccI	CCATC	1 cut(s)	255
BciT130I	CCWGG	1 cut(s)	705
BclI	TGATCA	2 cut(s)	175, 282
BcnI	CCSGG	1 cut(s)	560
BcoDI	GTCTC	1 cut(s)	18
BfaI	CTAG	4 cut(s)	120, 405, 432, 614
BfrI	CTTAAG	1 cut(s)	686
BisI	GCNGC	1 cut(s)	499
BlnI	CCTAGG	1 cut(s)	404
BlsI	GCNGC	1 cut(s)	500
Bme1390I	CCNGG	2 cut(s)	560, 705
BmgT120I	GGNCC	2 cut(s)	297, 610
BmiI	GGNNCC	1 cut(s)	244
BmrFI	CCNGG	2 cut(s)	560, 705
BmsI	GCATC	3 cut(s)	475, 677, 709
BpiI	GAAGAC	1 cut(s)	231
BpmI	CTGGAG	1 cut(s)	328
Bpu10I	CCTNAGC	1 cut(s)	293
BpuEI	CTTGAG	1 cut(s)	218
BpuMI	CCSGG	1 cut(s)	560
BsaBI	GATNNNNATC	1 cut(s)	174
BsaHI	GRCGYC	1 cut(s)	215
BsaJI	CCNNGG	1 cut(s)	404
BsaWI	WCCGGW	1 cut(s)	366
BsaXI	ACNNNNNCTCC	1 cut(s)	28
Bsc4I	CCNNNNNNNGG	3 cut(s)	294, 306, 432
Bse118I	RCCGGY	1 cut(s)	366
Bse8I	GATNNNNATC	1 cut(s)	174
BseBI	CCWGG	1 cut(s)	705
BseDI	CCNNGG	1 cut(s)	404
BseGI	GGATG	4 cut(s)	247, 325, 490, 700
BseJI	GATNNNNATC	1 cut(s)	174
BseLI	CCNNNNNNNGG	3 cut(s)	294, 306, 432
BseMII	CTCAG	3 cut(s)	119, 307, 627
BseRI	GAGGAG	1 cut(s)	176
BseXI	GCAGC	1 cut(s)	485
BshFI	GGCC	2 cut(s)	298, 612
BshTI	ACCGGT	1 cut(s)	366
BsiHKAI	GWGCWC	1 cut(s)	127
BsiSI	CCGG	2 cut(s)	367, 559
BslFI	GGGAC	1 cut(s)	575
BslI	CCNNNNNNNGG	3 cut(s)	294, 306, 432
BsmAI	GTCTC	1 cut(s)	18
BsmFI	GGGAC	1 cut(s)	575
BsnI	GGCC	2 cut(s)	298, 612
Bsp1286I	GDGCHC	1 cut(s)	127
Bsp143I	GATC	8 cut(s)	49, 169, 175, 237, 282, 400, 451, 519
BspACI	CCGC	1 cut(s)	377
BspANI	GGCC	2 cut(s)	298, 612
BspCNI	CTCAG	3 cut(s)	120, 306, 628
BspLI	GGNNCC	1 cut(s)	244
BspPI	GGATC	3 cut(s)	395, 459, 514
BspTI	CTTAAG	1 cut(s)	686
BsrFI	RCCGGY	1 cut(s)	366
BssAI	RCCGGY	1 cut(s)	366
BssECI	CCNNGG	1 cut(s)	404
BssMI	GATC	8 cut(s)	49, 169, 175, 237, 282, 400, 451, 519
BssNI	GRCGYC	1 cut(s)	215
BssT1I	CCWWGG	1 cut(s)	404
Bst2UI	CCWGG	1 cut(s)	705
Bst4CI	ACNGT	2 cut(s)	280, 713
Bst6I	CTCTTC	1 cut(s)	531
BstACI	GRCGYC	1 cut(s)	215
BstAFI	CTTAAG	1 cut(s)	686
BstC8I	GCNNGC	1 cut(s)	328
BstDEI	CTNAG	3 cut(s)	128, 293, 636
BstEII	GGTNACC	1 cut(s)	362
BstF5I	GGATG	4 cut(s)	247, 325, 490, 700
BstKTI	GATC	8 cut(s)	52, 172, 178, 240, 285, 403, 454, 522
BstMAI	GTCTC	1 cut(s)	18
BstMBI	GATC	8 cut(s)	49, 169, 175, 237, 282, 400, 451, 519
BstNI	CCWGG	1 cut(s)	705
BstPI	GGTNACC	1 cut(s)	362
BstSCI	CCNGG	2 cut(s)	558, 703
BstV1I	GCAGC	1 cut(s)	485
BstV2I	GAAGAC	1 cut(s)	231
BsuRI	GGCC	2 cut(s)	298, 612
BtsCI	GGATG	4 cut(s)	247, 325, 490, 700
BtsIMutI	CAGTG	1 cut(s)	125
Cac8I	GCNNGC	1 cut(s)	328
Cfr10I	RCCGGY	1 cut(s)	366
Cfr13I	GGNCC	2 cut(s)	297, 610
CseI	GACGC	1 cut(s)	223
Csp6I	GTAC	1 cut(s)	370
CspAI	ACCGGT	1 cut(s)	366
CspCI	CAANNNNNGTGG	2 cut(s)	6, 41
CviAII	CATG	2 cut(s)	86, 543
CviQI	GTAC	1 cut(s)	370
DdeI	CTNAG	3 cut(s)	128, 293, 636
DpnI	GATC	8 cut(s)	51, 171, 177, 239, 284, 402, 453, 521
DpnII	GATC	8 cut(s)	49, 169, 175, 237, 282, 400, 451, 519
Eam1104I	CTCTTC	1 cut(s)	531
EarI	CTCTTC	1 cut(s)	531
Eco130I	CCWWGG	1 cut(s)	404
Eco32I	GATATC	1 cut(s)	662
Eco57I	CTGAAG	1 cut(s)	240
Eco91I	GGTNACC	1 cut(s)	362
EcoO109I	RGGNCCY	1 cut(s)	297
EcoO65I	GGTNACC	1 cut(s)	362
EcoRII	CCWGG	1 cut(s)	703
EcoRV	GATATC	1 cut(s)	662
EcoT14I	CCWWGG	1 cut(s)	404
ErhI	CCWWGG	1 cut(s)	404
FaeI	CATG	2 cut(s)	89, 546
FaiI	YATR	9 cut(s)	87, 348, 350, 352, 375, 440, 474, 544, 633
FalI	AAGNNNNNCTT	2 cut(s)	143, 175
FaqI	GGGAC	1 cut(s)	575
FatI	CATG	2 cut(s)	85, 542
FauI	CCCGC	1 cut(s)	370
FbaI	TGATCA	2 cut(s)	175, 282
FblI	GTMKAC	1 cut(s)	579
Fnu4HI	GCNGC	1 cut(s)	499
FokI	GGATG	4 cut(s)	234, 332, 497, 687
Fsp4HI	GCNGC	1 cut(s)	499
FspBI	CTAG	4 cut(s)	120, 405, 432, 614
GluI	GCNGC	1 cut(s)	499
GsuI	CTGGAG	1 cut(s)	328
HaeIII	GGCC	2 cut(s)	298, 612
HapII	CCGG	2 cut(s)	367, 559
HgaI	GACGC	1 cut(s)	223
Hin1I	GRCGYC	1 cut(s)	215
Hin1II	CATG	2 cut(s)	89, 546
HincII	GTYRAC	1 cut(s)	580
HindII	GTYRAC	1 cut(s)	580
HinfI	GANTC	4 cut(s)	201, 312, 459, 478
HpaII	CCGG	2 cut(s)	367, 559
HphI	GGTGA	2 cut(s)	98, 277
Hpy166II	GTNNAC	1 cut(s)	580
Hpy188I	TCNGA	2 cut(s)	213, 242
Hpy188III	TCNNGA	9 cut(s)	32, 47, 167, 173, 235, 257, 307, 482, 677
Hpy8I	GTNNAC	1 cut(s)	580
Hpy99I	CGWCG	1 cut(s)	25
HpyAV	CCTTC	3 cut(s)	31, 84, 403
HpyCH4III	ACNGT	2 cut(s)	280, 713
HpyCH4IV	ACGT	1 cut(s)	23
HpyCH4V	TGCA	2 cut(s)	501, 624
HpyF3I	CTNAG	3 cut(s)	128, 293, 636
HpySE526I	ACGT	1 cut(s)	23
Hsp92I	GRCGYC	1 cut(s)	215
Hsp92II	CATG	2 cut(s)	89, 546
Ksp22I	TGATCA	2 cut(s)	175, 282
Kzo9I	GATC	8 cut(s)	49, 169, 175, 237, 282, 400, 451, 519
LmnI	GCTCC	1 cut(s)	159
Lsp1109I	GCAGC	1 cut(s)	485
LweI	GCATC	3 cut(s)	475, 677, 709
MaeI	CTAG	4 cut(s)	120, 405, 432, 614
MaeII	ACGT	1 cut(s)	23
MaeIII	GTNAC	1 cut(s)	362
MalI	GATC	8 cut(s)	51, 171, 177, 239, 284, 402, 453, 521
MboI	GATC	8 cut(s)	49, 169, 175, 237, 282, 400, 451, 519
MboII	GAAGA	5 cut(s)	69, 93, 233, 236, 548
MhlI	GDGCHC	1 cut(s)	127
MluCI	AATT	4 cut(s)	94, 112, 136, 502
MlyI	GAGTC	2 cut(s)	195, 487
MmeI	TCCRAC	1 cut(s)	165
MnlI	CCTC	3 cut(s)	197, 442, 532
MseI	TTAA	2 cut(s)	641, 687
MspCI	CTTAAG	1 cut(s)	686
MspI	CCGG	2 cut(s)	367, 559
MspR9I	CCNGG	2 cut(s)	560, 705
MvaI	CCWGG	1 cut(s)	705
NciI	CCSGG	1 cut(s)	560
NdeII	GATC	8 cut(s)	49, 169, 175, 237, 282, 400, 451, 519
NlaIII	CATG	2 cut(s)	89, 546
NlaIV	GGNNCC	1 cut(s)	244
PfeI	GAWTC	2 cut(s)	312, 459
PfoI	TCCNGGA	1 cut(s)	703
PinAI	ACCGGT	1 cut(s)	366
PkrI	GCNGC	1 cut(s)	500
PleI	GAGTC	2 cut(s)	195, 486
PpsI	GAGTC	2 cut(s)	195, 486
Psp6I	CCWGG	1 cut(s)	703
PspEI	GGTNACC	1 cut(s)	362
PspGI	CCWGG	1 cut(s)	703
PspN4I	GGNNCC	1 cut(s)	244
PspPI	GGNCC	2 cut(s)	297, 610
RsaI	GTAC	1 cut(s)	371
RsaNI	GTAC	1 cut(s)	370
SalI	GTCGAC	1 cut(s)	578
SaqAI	TTAA	2 cut(s)	641, 687
SatI	GCNGC	1 cut(s)	499
Sau3AI	GATC	8 cut(s)	49, 169, 175, 237, 282, 400, 451, 519
Sau96I	GGNCC	2 cut(s)	297, 610
SchI	GAGTC	2 cut(s)	195, 487
ScrFI	CCNGG	2 cut(s)	560, 705
SduI	GDGCHC	1 cut(s)	127
SetI	ASST	6 cut(s)	26, 156, 294, 345, 619, 693
SfaNI	GCATC	3 cut(s)	475, 677, 709
SmlI	CTYRAG	2 cut(s)	233, 686
SmoI	CTYRAG	2 cut(s)	233, 686
Sse9I	AATT	4 cut(s)	94, 112, 136, 502
SsiI	CCGC	1 cut(s)	377
SspMI	CTAG	4 cut(s)	120, 405, 432, 614
StyD4I	CCNGG	2 cut(s)	558, 703
StyI	CCWWGG	1 cut(s)	404
TaaI	ACNGT	2 cut(s)	280, 713
TaiI	ACGT	1 cut(s)	26
TaqI	TCGA	2 cut(s)	199, 579
TasI	AATT	4 cut(s)	94, 112, 136, 502
TfiI	GAWTC	2 cut(s)	312, 459
Tru1I	TTAA	2 cut(s)	641, 687
Tru9I	TTAA	2 cut(s)	641, 687
TscAI	CASTG	1 cut(s)	132
TseI	GCWGC	1 cut(s)	498
TspDTI	ATGAA	4 cut(s)	57, 74, 336, 666
TspGWI	ACGGA	2 cut(s)	415, 471
TspRI	CASTG	1 cut(s)	132
Vha464I	CTTAAG	1 cut(s)	686
XmaJI	CCTAGG	1 cut(s)	404
XmiI	GTMKAC	1 cut(s)	579
XspI	CTAG	4 cut(s)	120, 405, 432, 614

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