Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0017814

Physical Location & Seq

Genomic Coordinates Reverse (-)

77079835 .. 77080560

Gene Structure 726 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG490600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGAGTCTGGAGAGCAGTAATGATTCACCTTCCGGCAGTAGTAAGGCACTATATTCTTGTTCTGATGATGAGAGTGAGATTGGAATTAGTGACAGGAGAAAAAGGCATAAAGTAGAGAATAGTCATGGGTCGTCCACTACAAAGAAGGAGATCAAGGATGAGACTTCGGAAAAGATTAATCCTCAGAGTCATTATTATTCCAATTCTAGTGTGGGATTTGATTATATACGCGAAAGAGTAAGGAATCACAAGGATGAAATTGACCGTTTACGCAAGGCAAACACTAACATCTTATTGTCCTGCCACAAAAAACTCCACTTGGTTATTGACCTAGATCACACCCTGCTAAATACCACCAGTCTCTCCGATATGTCGCCGGAAGAAGAATATTTGAAGACCCAAACAGACTATTGTTTGCAGAATATCGATGCTTTCAAATATGAGTTACCTCCCAAACATAAGATGACAGTTGTCAGAACCTTTCTAAAGGAAGCCAGCAACATGTTTGACATGTACATATACACAGCTGGTTCACGTCCTTACGCATTGAAAATGGTTGAGCTCCTCGGAAAAGACTACTTCGGGTCTAGGGTTATATCTCGTGATGATTTTAATGATAGCTTCAAAATGAAGTGTCTAGAACTTATGCATGGCAAAGAGTCTGCTGTTTTGATCCTTGATGATAACATGGATGCATGGACAAGGGAAAATCAGAGCAATTCCTGA

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

241

Amino Acids

27.79

Weight (kDa)

6.0

Isoelectric Point (pI)

65.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	106 - 238	1.3e-15	NLI interacting factor-like phosphatase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0017814)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr5g0070271 RchiOBHm_Chr5g0070281
rosa_laevigata	RLG00000036122
rosa_multiflora	Rmu_sc0009590.1_g000001
rosa_roxburghii	Rroxscaffold_1G00010870
rosa_rugosa	Rorug05G0404700 Rorug05G0404800
rosa_samantha	Rh5AG460000 Rh5BG478600 Rh5CG502800 Rh5DG490500 Rh5DG490600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	231
AclWI	GGATC	1 cut(s)	667
AfaI	GTAC	1 cut(s)	515
AflIII	ACRYGT	2 cut(s)	501, 510
AgsI	TTSAA	4 cut(s)	394, 436, 550, 625
AjiI	CACGTC	1 cut(s)	536
AluBI	AGCT	3 cut(s)	527, 562, 621
AluI	AGCT	3 cut(s)	527, 562, 621
Alw21I	GWGCWC	1 cut(s)	564
Alw26I	GTCTC	2 cut(s)	155, 365
AlwI	GGATC	1 cut(s)	667
AseI	ATTAAT	1 cut(s)	177
AsuHPI	GGTGA	1 cut(s)	18
BanII	GRGCYC	1 cut(s)	564
BauI	CACGAG	1 cut(s)	600
BbsI	GAAGAC	1 cut(s)	401
Bbv12I	GWGCWC	1 cut(s)	564
BcoDI	GTCTC	2 cut(s)	155, 365
BfaI	CTAG	4 cut(s)	207, 332, 588, 638
BmgBI	CACGTC	1 cut(s)	536
BmsI	GCATC	2 cut(s)	418, 682
BoxI	GACNNNNGTC	1 cut(s)	470
BpiI	GAAGAC	1 cut(s)	401
BpmI	CTGGAG	1 cut(s)	29
Bsa29I	ATCGAT	1 cut(s)	426
BsaJI	CCNNGG	1 cut(s)	565
Bse1I	ACTGG	1 cut(s)	357
BseCI	ATCGAT	1 cut(s)	426
BseDI	CCNNGG	1 cut(s)	565
BseGI	GGATG	3 cut(s)	163, 259, 697
BseMII	CTCAG	1 cut(s)	197
BseNI	ACTGG	1 cut(s)	357
BseRI	GAGGAG	1 cut(s)	554
Bsh1236I	CGCG	1 cut(s)	231
BshVI	ATCGAT	1 cut(s)	426
BsiHKAI	GWGCWC	1 cut(s)	564
BsiSI	CCGG	2 cut(s)	33, 377
BsmAI	GTCTC	2 cut(s)	155, 365
Bsp1286I	GDGCHC	1 cut(s)	564
Bsp1407I	TGTACA	1 cut(s)	513
Bsp143I	GATC	3 cut(s)	150, 334, 672
BspCNI	CTCAG	1 cut(s)	196
BspDI	ATCGAT	1 cut(s)	426
BspFNI	CGCG	1 cut(s)	231
BspPI	GGATC	1 cut(s)	667
BsrGI	TGTACA	1 cut(s)	513
BsrI	ACTGG	1 cut(s)	357
BssECI	CCNNGG	1 cut(s)	565
BssMI	GATC	3 cut(s)	150, 334, 672
BssSI	CACGAG	1 cut(s)	600
Bst2BI	CACGAG	1 cut(s)	600
Bst4CI	ACNGT	2 cut(s)	266, 469
BstAUI	TGTACA	1 cut(s)	513
BstC8I	GCNNGC	1 cut(s)	496
BstDEI	CTNAG	1 cut(s)	183
BstF5I	GGATG	3 cut(s)	163, 259, 697
BstFNI	CGCG	1 cut(s)	231
BstKTI	GATC	3 cut(s)	153, 337, 675
BstMAI	GTCTC	2 cut(s)	155, 365
BstMBI	GATC	3 cut(s)	150, 334, 672
BstNSI	RCATGY	2 cut(s)	505, 514
BstPAI	GACNNNNGTC	1 cut(s)	470
BstUI	CGCG	1 cut(s)	231
BstV2I	GAAGAC	1 cut(s)	401
Bsu15I	ATCGAT	1 cut(s)	426
BsuTUI	ATCGAT	1 cut(s)	426
BtrI	CACGTC	1 cut(s)	536
BtsCI	GGATG	3 cut(s)	163, 259, 697
Cac8I	GCNNGC	1 cut(s)	496
ClaI	ATCGAT	1 cut(s)	426
Csp6I	GTAC	1 cut(s)	514
CviAII	CATG	6 cut(s)	125, 502, 511, 650, 688, 696
CviJI	RGCY	4 cut(s)	494, 527, 562, 621
CviKI_1	RGCY	4 cut(s)	494, 527, 562, 621
CviQI	GTAC	1 cut(s)	514
DdeI	CTNAG	1 cut(s)	183
DpnI	GATC	3 cut(s)	152, 336, 674
DpnII	GATC	3 cut(s)	150, 334, 672
Ecl136II	GAGCTC	1 cut(s)	562
Eco24I	GRGCYC	1 cut(s)	564
Eco53kI	GAGCTC	1 cut(s)	562
EcoICRI	GAGCTC	1 cut(s)	562
EcoT22I	ATGCAT	2 cut(s)	651, 697
EcoT38I	GRGCYC	1 cut(s)	564
FaeI	CATG	6 cut(s)	128, 505, 514, 653, 691, 699
FatI	CATG	6 cut(s)	124, 501, 510, 649, 687, 695
FokI	GGATG	3 cut(s)	170, 266, 704
FriOI	GRGCYC	1 cut(s)	564
FspBI	CTAG	4 cut(s)	207, 332, 588, 638
GsuI	CTGGAG	1 cut(s)	29
HapII	CCGG	2 cut(s)	33, 377
Hin1II	CATG	6 cut(s)	128, 505, 514, 653, 691, 699
HinfI	GANTC	5 cut(s)	4, 23, 187, 244, 659
HpaII	CCGG	2 cut(s)	33, 377
HphI	GGTGA	1 cut(s)	18
Hpy166II	GTNNAC	3 cut(s)	135, 269, 533
Hpy188I	TCNGA	7 cut(s)	64, 169, 186, 367, 476, 569, 714
Hpy188III	TCNNGA	4 cut(s)	8, 602, 638, 723
Hpy8I	GTNNAC	3 cut(s)	135, 269, 533
HpyAV	CCTTC	2 cut(s)	39, 139
HpyCH4III	ACNGT	2 cut(s)	266, 469
HpyCH4IV	ACGT	1 cut(s)	535
HpyCH4V	TGCA	3 cut(s)	418, 649, 695
HpyF3I	CTNAG	1 cut(s)	183
HpySE526I	ACGT	1 cut(s)	535
Hsp92II	CATG	6 cut(s)	128, 505, 514, 653, 691, 699
Kzo9I	GATC	3 cut(s)	150, 334, 672
LmnI	GCTCC	1 cut(s)	567
LpnPI	CCDG	8 cut(s)	46, 79, 313, 356, 370, 390, 508, 513
LweI	GCATC	2 cut(s)	418, 682
MaeI	CTAG	4 cut(s)	207, 332, 588, 638
MaeII	ACGT	1 cut(s)	535
MaeIII	GTNAC	2 cut(s)	89, 444
MalI	GATC	3 cut(s)	152, 336, 674
MboI	GATC	3 cut(s)	150, 334, 672
MboII	GAAGA	3 cut(s)	392, 395, 406
MhlI	GDGCHC	1 cut(s)	564
MluCI	AATT	4 cut(s)	84, 202, 258, 718
MlyI	GAGTC	3 cut(s)	13, 196, 668
MnlI	CCTC	3 cut(s)	192, 459, 575
Mph1103I	ATGCAT	2 cut(s)	651, 697
MseI	TTAA	2 cut(s)	177, 612
MslI	CAYNNNNRTG	1 cut(s)	252
MspA1I	CMGCKG	1 cut(s)	527
MspI	CCGG	2 cut(s)	33, 377
MvnI	CGCG	1 cut(s)	231
NdeII	GATC	3 cut(s)	150, 334, 672
NlaIII	CATG	6 cut(s)	128, 505, 514, 653, 691, 699
NmuCI	GTSAC	1 cut(s)	89
NsiI	ATGCAT	2 cut(s)	651, 697
NspI	RCATGY	2 cut(s)	505, 514
PciI	ACATGT	2 cut(s)	501, 510
PfeI	GAWTC	2 cut(s)	23, 244
PleI	GAGTC	3 cut(s)	12, 195, 667
PpsI	GAGTC	3 cut(s)	12, 195, 667
PscI	ACATGT	2 cut(s)	501, 510
PshAI	GACNNNNGTC	1 cut(s)	470
PshBI	ATTAAT	1 cut(s)	177
Psp124BI	GAGCTC	1 cut(s)	564
PvuII	CAGCTG	1 cut(s)	527
RsaI	GTAC	1 cut(s)	515
RsaNI	GTAC	1 cut(s)	514
RseI	CAYNNNNRTG	1 cut(s)	252
SacI	GAGCTC	1 cut(s)	564
SaqAI	TTAA	2 cut(s)	177, 612
Sau3AI	GATC	3 cut(s)	150, 334, 672
SchI	GAGTC	3 cut(s)	13, 196, 668
SduI	GDGCHC	1 cut(s)	564
SetI	ASST	8 cut(s)	31, 333, 451, 482, 529, 538, 564, 623
SfaNI	GCATC	2 cut(s)	418, 682
SmiMI	CAYNNNNRTG	1 cut(s)	252
Sse9I	AATT	4 cut(s)	84, 202, 258, 718
SspI	AATATT	1 cut(s)	389
SspMI	CTAG	4 cut(s)	207, 332, 588, 638
SstI	GAGCTC	1 cut(s)	564
TaaI	ACNGT	2 cut(s)	266, 469
TaiI	ACGT	1 cut(s)	538
TaqI	TCGA	1 cut(s)	426
TasI	AATT	4 cut(s)	84, 202, 258, 718
TatI	WGTACW	1 cut(s)	513
TfiI	GAWTC	2 cut(s)	23, 244
Tru1I	TTAA	2 cut(s)	177, 612
Tru9I	TTAA	2 cut(s)	177, 612
TseFI	GTSAC	1 cut(s)	89
Tsp45I	GTSAC	1 cut(s)	89
TspDTI	ATGAA	2 cut(s)	270, 644
VspI	ATTAAT	1 cut(s)	177
XbaI	TCTAGA	1 cut(s)	637
XceI	RCATGY	2 cut(s)	505, 514
XcmI	CCANNNNNNNNNTGG	1 cut(s)	208
XspI	CTAG	4 cut(s)	207, 332, 588, 638
Zsp2I	ATGCAT	2 cut(s)	651, 697

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