Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0004854

Physical Location & Seq

Genomic Coordinates Reverse (-)

40439868 .. 40443313

Gene Structure 3446 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG238300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGAGTCACCCGATCAATTCCATTGCTTCGTATCTTGAGAGAGCACTGAAATCAAATTCCAAGTCATATGCAACACAAAACAAAAAACTTAACTTGGTACTTGATCTTGATCACACGCTACTGTATTCCACTTCACTCAAAAATTTGACGCCCCTAGAAGAATACTTGATCACCAAACCAGATGATCCATCTCTGCAAGGTGATGTTTTCATGAATTCCATCATAATAACCAAGCTGAGGCCATTCGTGAGGACATTTCTAAAGGAAGCCGGTCAAATGTTTGAGATGCACATATACACAATGGGCTGTCGAGCTTACGCGATGCAAATGGCTGAGCTGCTTGACCCCGGAAAAGAGTACTTCTTCACCTCCACCTCCACCTCCAATTCTAAAATAACATCGCGTGATGATCATAGCTCCCCAGGACAAAAGAAGTGTCTAAATCTTGTGCACGGCTGCCAAAATTCTAATGTCTTGATCCTCGACGATATAAGAAACGCATGGACAAAGAAAAATCAGGACAATTTGATAGTAATGCAAAAGTACTATTTCTTCAAATCCACTTGTCATCTCAATAATGTTACCGGTCAATCTCATGCCGAGTTAAGGACCGATGAAAGCGGTTATCTTGAACACATTCTTCGGTGTCTTAAGCGAATCCATGATATCTGGACCAACAATCCTATCGACATTGATGTAAGGCAGGTGTTAAAAATTCATCGGAAGCGGGTGTTGAAGGGGTGTGTGATTGTTTTTTCATGTTGA

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

254

Amino Acids

29.24

Weight (kDa)

8.98

Isoelectric Point (pI)

33.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	31 - 187	8.6e-22	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: OG0004854)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g17821 FvH4_4g17830
rosa_chinensis	RchiOBHm_Chr4g0421781 RchiOBHm_Chr4g0421791 RchiOBHm_Chr4g0421881 RchiOBHm_Chr4g0421951 RchiOBHm_Chr5g0075131 RchiOBHm_Chr7g0189971
rosa_laevigata	RLG00000007651 RLG00000019705 RLG00000036532
rosa_multiflora	Rmu_co8181706.1_g000001 Rmu_sc0011516.1_g000006 Rmu_sc0030271.1_g000001 Rmu_ssc0000217.1_g000008
rosa_roxburghii	Rroxscaffold_1G00006490 Rroxscaffold_5G00364040 Rroxscaffold_7G00156710
rosa_rugosa	Rorug07G0129200
rosa_samantha	Rh2BG403800 Rh4BG238000 Rh4BG238100 Rh4BG238300 Rh4CG250000 Rh4CG250100 Rh4DG234100 Rh5DG527800 Rh6AG087100 Rh6AG514900 Rh7AG106900 Rh7DG110100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	694
Acc36I	ACCTGC	1 cut(s)	694
AccII	CGCG	2 cut(s)	320, 403
AciI	CCGC	2 cut(s)	621, 727
AclWI	GGATC	2 cut(s)	179, 472
AcsI	RAATTY	5 cut(s)	55, 142, 214, 463, 714
AcyI	GRCGYC	1 cut(s)	149
AfaI	GTAC	3 cut(s)	99, 359, 545
AfiI	CCNNNNNNNGG	2 cut(s)	237, 606
AflII	CTTAAG	1 cut(s)	650
AgeI	ACCGGT	1 cut(s)	584
AgsI	TTSAA	3 cut(s)	556, 632, 736
AjnI	CCWGG	1 cut(s)	421
AluBI	AGCT	4 cut(s)	235, 314, 337, 417
AluI	AGCT	4 cut(s)	235, 314, 337, 417
Alw21I	GWGCWC	2 cut(s)	46, 453
Alw44I	GTGCAC	1 cut(s)	449
AlwI	GGATC	2 cut(s)	179, 472
AoxI	GGCC	1 cut(s)	239
ApaLI	GTGCAC	1 cut(s)	449
ApeKI	GCWGC	2 cut(s)	337, 456
ApoI	RAATTY	5 cut(s)	55, 142, 214, 463, 714
ArsI	GACNNNNNNTTYG	4 cut(s)	47, 79, 421, 453
AsiGI	ACCGGT	1 cut(s)	584
Asp700I	GAANNNNTTC	1 cut(s)	636
AspS9I	GGNCC	2 cut(s)	609, 672
AsuC2I	CCSGG	1 cut(s)	348
AsuHPI	GGTGA	3 cut(s)	163, 212, 358
AvaII	GGWCC	2 cut(s)	609, 672
BaeGI	GKGCMC	1 cut(s)	453
BarI	GAAGNNNNNNTAC	2 cut(s)	536, 568
Bbv12I	GWGCWC	2 cut(s)	46, 453
BbvCI	CCTCAGC	1 cut(s)	236
BbvI	GCAGC	2 cut(s)	324, 443
BccI	CCATC	2 cut(s)	196, 227
BceAI	ACGGC	1 cut(s)	469
BciT130I	CCWGG	1 cut(s)	423
BclI	TGATCA	3 cut(s)	109, 168, 409
BcnI	CCSGG	1 cut(s)	348
BfaI	CTAG	1 cut(s)	155
BfrI	CTTAAG	1 cut(s)	650
BfuAI	ACCTGC	1 cut(s)	694
BisI	GCNGC	2 cut(s)	338, 457
BlpI	GCTNAGC	1 cut(s)	333
BlsI	GCNGC	2 cut(s)	339, 458
BmcAI	AGTACT	2 cut(s)	359, 545
Bme1390I	CCNGG	2 cut(s)	348, 423
Bme18I	GGWCC	2 cut(s)	609, 672
BmgT120I	GGNCC	2 cut(s)	609, 672
BmrFI	CCNGG	2 cut(s)	348, 423
BmsI	GCATC	2 cut(s)	276, 312
Bpu10I	CCTNAGC	1 cut(s)	236
Bpu1102I	GCTNAGC	1 cut(s)	333
BpuEI	CTTGAG	1 cut(s)	56
BpuMI	CCSGG	1 cut(s)	348
BsaBI	GATNNNNATC	1 cut(s)	108
BsaHI	GRCGYC	1 cut(s)	149
BsaJI	CCNNGG	2 cut(s)	346, 421
BsaWI	WCCGGW	1 cut(s)	584
Bsc4I	CCNNNNNNNGG	2 cut(s)	237, 606
Bse118I	RCCGGY	2 cut(s)	269, 584
Bse3DI	GCAATG	1 cut(s)	21
Bse8I	GATNNNNATC	1 cut(s)	108
BseBI	CCWGG	1 cut(s)	423
BseDI	CCNNGG	2 cut(s)	346, 421
BseJI	GATNNNNATC	1 cut(s)	108
BseLI	CCNNNNNNNGG	2 cut(s)	237, 606
BseMI	GCAATG	1 cut(s)	21
BseMII	CTCAG	2 cut(s)	227, 324
BseSI	GKGCMC	1 cut(s)	453
BseXI	GCAGC	2 cut(s)	324, 443
Bsh1236I	CGCG	2 cut(s)	320, 403
BshFI	GGCC	1 cut(s)	241
BshTI	ACCGGT	1 cut(s)	584
BsiHKAI	GWGCWC	2 cut(s)	46, 453
BsiSI	CCGG	3 cut(s)	270, 348, 585
BslI	CCNNNNNNNGG	2 cut(s)	237, 606
BsnI	GGCC	1 cut(s)	241
Bsp1286I	GDGCHC	2 cut(s)	46, 453
Bsp143I	GATC	7 cut(s)	12, 103, 109, 168, 184, 409, 477
Bsp1720I	GCTNAGC	1 cut(s)	333
BspACI	CCGC	2 cut(s)	621, 727
BspANI	GGCC	1 cut(s)	241
BspCNI	CTCAG	2 cut(s)	228, 325
BspFNI	CGCG	2 cut(s)	320, 403
BspHI	TCATGA	1 cut(s)	210
BspMI	ACCTGC	1 cut(s)	694
BspPI	GGATC	2 cut(s)	179, 472
BspTI	CTTAAG	1 cut(s)	650
BsrDI	GCAATG	1 cut(s)	21
BsrFI	RCCGGY	2 cut(s)	269, 584
BssAI	RCCGGY	2 cut(s)	269, 584
BssECI	CCNNGG	2 cut(s)	346, 421
BssMI	GATC	7 cut(s)	12, 103, 109, 168, 184, 409, 477
BssNI	GRCGYC	1 cut(s)	149
Bst2UI	CCWGG	1 cut(s)	423
Bst4CI	ACNGT	1 cut(s)	123
BstACI	GRCGYC	1 cut(s)	149
BstAFI	CTTAAG	1 cut(s)	650
BstDEI	CTNAG	2 cut(s)	236, 333
BstFNI	CGCG	2 cut(s)	320, 403
BstKTI	GATC	7 cut(s)	15, 106, 112, 171, 187, 412, 480
BstMBI	GATC	7 cut(s)	12, 103, 109, 168, 184, 409, 477
BstNI	CCWGG	1 cut(s)	423
BstSCI	CCNGG	2 cut(s)	346, 421
BstSLI	GKGCMC	1 cut(s)	453
BstUI	CGCG	2 cut(s)	320, 403
BstV1I	GCAGC	2 cut(s)	324, 443
BsuRI	GGCC	1 cut(s)	241
BtgZI	GCGATG	2 cut(s)	335, 384
BtsIMutI	CAGTG	1 cut(s)	44
BveI	ACCTGC	1 cut(s)	694
CciI	TCATGA	1 cut(s)	210
Cfr10I	RCCGGY	2 cut(s)	269, 584
Cfr13I	GGNCC	2 cut(s)	609, 672
CseI	GACGC	1 cut(s)	157
Csp6I	GTAC	3 cut(s)	98, 358, 544
CspAI	ACCGGT	1 cut(s)	584
CviAII	CATG	5 cut(s)	211, 501, 596, 662, 759
CviJI	RGCY	9 cut(s)	235, 241, 269, 306, 314, 332, 337, 417, 456
CviKI_1	RGCY	9 cut(s)	235, 241, 269, 306, 314, 332, 337, 417, 456
CviQI	GTAC	3 cut(s)	98, 358, 544
DdeI	CTNAG	2 cut(s)	236, 333
DpnI	GATC	7 cut(s)	14, 105, 111, 170, 186, 411, 479
DpnII	GATC	7 cut(s)	12, 103, 109, 168, 184, 409, 477
Eco32I	GATATC	1 cut(s)	667
Eco47I	GGWCC	2 cut(s)	609, 672
EcoRI	GAATTC	1 cut(s)	214
EcoRII	CCWGG	1 cut(s)	421
EcoRV	GATATC	1 cut(s)	667
FaeI	CATG	5 cut(s)	214, 504, 599, 665, 762
FatI	CATG	5 cut(s)	210, 500, 595, 661, 758
FauI	CCCGC	1 cut(s)	720
FauNDI	CATATG	1 cut(s)	67
FbaI	TGATCA	3 cut(s)	109, 168, 409
Fnu4HI	GCNGC	2 cut(s)	338, 457
Fsp4HI	GCNGC	2 cut(s)	338, 457
FspBI	CTAG	1 cut(s)	155
GluI	GCNGC	2 cut(s)	338, 457
HaeIII	GGCC	1 cut(s)	241
HapII	CCGG	3 cut(s)	270, 348, 585
HgaI	GACGC	1 cut(s)	157
Hin1I	GRCGYC	1 cut(s)	149
Hin1II	CATG	5 cut(s)	214, 504, 599, 665, 762
HinfI	GANTC	2 cut(s)	4, 657
HpaII	CCGG	3 cut(s)	270, 348, 585
HphI	GGTGA	3 cut(s)	163, 212, 358
Hpy166II	GTNNAC	1 cut(s)	451
Hpy188I	TCNGA	1 cut(s)	723
Hpy188III	TCNNGA	8 cut(s)	35, 107, 211, 247, 475, 518, 629, 670
Hpy8I	GTNNAC	1 cut(s)	451
Hpy99I	CGWCG	1 cut(s)	488
HpyAV	CCTTC	1 cut(s)	730
HpyCH4III	ACNGT	1 cut(s)	123
HpyCH4V	TGCA	6 cut(s)	71, 196, 289, 325, 451, 538
HpyF3I	CTNAG	2 cut(s)	236, 333
Hsp92I	GRCGYC	1 cut(s)	149
Hsp92II	CATG	5 cut(s)	214, 504, 599, 665, 762
Ksp22I	TGATCA	3 cut(s)	109, 168, 409
Kzo9I	GATC	7 cut(s)	12, 103, 109, 168, 184, 409, 477
LmnI	GCTCC	1 cut(s)	422
LpnPI	CCDG	9 cut(s)	192, 283, 361, 408, 435, 503, 598, 655, 689
Lsp1109I	GCAGC	2 cut(s)	324, 443
LweI	GCATC	2 cut(s)	276, 312
MaeI	CTAG	1 cut(s)	155
MaeIII	GTNAC	2 cut(s)	5, 580
MalI	GATC	7 cut(s)	14, 105, 111, 170, 186, 411, 479
MboI	GATC	7 cut(s)	12, 103, 109, 168, 184, 409, 477
MboII	GAAGA	4 cut(s)	170, 355, 544, 632
MhlI	GDGCHC	2 cut(s)	46, 453
MluCI	AATT	8 cut(s)	16, 55, 142, 214, 385, 463, 523, 714
MlyI	GAGTC	1 cut(s)	13
MnlI	CCTC	6 cut(s)	231, 243, 379, 385, 391, 491
MroXI	GAANNNNTTC	1 cut(s)	636
MseI	TTAA	4 cut(s)	90, 605, 651, 710
MspCI	CTTAAG	1 cut(s)	650
MspI	CCGG	3 cut(s)	270, 348, 585
MspR9I	CCNGG	2 cut(s)	348, 423
MvaI	CCWGG	1 cut(s)	423
MvnI	CGCG	2 cut(s)	320, 403
NciI	CCSGG	1 cut(s)	348
NdeI	CATATG	1 cut(s)	67
NdeII	GATC	7 cut(s)	12, 103, 109, 168, 184, 409, 477
NlaIII	CATG	5 cut(s)	214, 504, 599, 665, 762
NmeAIII	GCCGAG	1 cut(s)	625
NmuCI	GTSAC	1 cut(s)	5
PagI	TCATGA	1 cut(s)	210
PaqCI	CACCTGC	1 cut(s)	694
PdmI	GAANNNNTTC	1 cut(s)	636
PfeI	GAWTC	1 cut(s)	657
PinAI	ACCGGT	1 cut(s)	584
PkrI	GCNGC	2 cut(s)	339, 458
PleI	GAGTC	1 cut(s)	12
PpsI	GAGTC	1 cut(s)	12
Psp6I	CCWGG	1 cut(s)	421
PspGI	CCWGG	1 cut(s)	421
PspPI	GGNCC	2 cut(s)	609, 672
RsaI	GTAC	3 cut(s)	99, 359, 545
RsaNI	GTAC	3 cut(s)	98, 358, 544
SaqAI	TTAA	4 cut(s)	90, 605, 651, 710
SatI	GCNGC	2 cut(s)	338, 457
Sau3AI	GATC	7 cut(s)	12, 103, 109, 168, 184, 409, 477
Sau96I	GGNCC	2 cut(s)	609, 672
ScaI	AGTACT	2 cut(s)	359, 545
SchI	GAGTC	1 cut(s)	13
ScrFI	CCNGG	2 cut(s)	348, 423
SduI	GDGCHC	2 cut(s)	46, 453
SetI	ASST	9 cut(s)	202, 237, 316, 339, 371, 377, 383, 419, 708
SfaNI	GCATC	2 cut(s)	276, 312
SinI	GGWCC	2 cut(s)	609, 672
SmlI	CTYRAG	2 cut(s)	35, 650
SmoI	CTYRAG	2 cut(s)	35, 650
Sse9I	AATT	8 cut(s)	16, 55, 142, 214, 385, 463, 523, 714
SsiI	CCGC	2 cut(s)	621, 727
SspMI	CTAG	1 cut(s)	155
StyD4I	CCNGG	2 cut(s)	346, 421
TaaI	ACNGT	1 cut(s)	123
TaqI	TCGA	3 cut(s)	310, 483, 687
TaqII	GACCGA	1 cut(s)	626
TasI	AATT	8 cut(s)	16, 55, 142, 214, 385, 463, 523, 714
TatI	WGTACW	2 cut(s)	357, 543
TfiI	GAWTC	1 cut(s)	657
Tru1I	TTAA	4 cut(s)	90, 605, 651, 710
Tru9I	TTAA	4 cut(s)	90, 605, 651, 710
TscAI	CASTG	1 cut(s)	51
TseFI	GTSAC	1 cut(s)	5
TseI	GCWGC	2 cut(s)	337, 456
Tsp45I	GTSAC	1 cut(s)	5
TspDTI	ATGAA	5 cut(s)	199, 227, 630, 707, 747
TspRI	CASTG	1 cut(s)	51
Vha464I	CTTAAG	1 cut(s)	650
VneI	GTGCAC	1 cut(s)	449
VpaK11BI	GGWCC	2 cut(s)	609, 672
XapI	RAATTY	5 cut(s)	55, 142, 214, 463, 714
XmnI	GAANNNNTTC	1 cut(s)	636
XspI	CTAG	1 cut(s)	155
ZrmI	AGTACT	2 cut(s)	359, 545

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