Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0001341

Physical Location & Seq

Genomic Coordinates Reverse (-)

42909720 .. 42911372

Gene Structure 1653 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000003001

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1053 bp

ATGGCAACTCTGTCTCAACCAACGTTGTTTCAGGAGAAGGAAAATCTGGATCTCAATGGTAATCTTTCATATCCTTCTTCTTTTCATGTTTCAAATTGTTCTTCTAACCCTAATTTTGCCAGAGCACTGAGTCTCAATTCCAACTCCAGAAAGCTCCACTTGGTTCTTGATCTTGATCACACACTCCTCCACACCACTCAACTCTGTAATCTGACACCTGAAGAAGAATATCTCAAGATCGGAACCCATCCTCATCGAGATGTTTTCGTGCTTGAAACTGTGATCACCAAGCTCAGGCCCTTTGTCTGGAGATTCTTGGATGAAGCCAGCAAGATGTTTGAGCTGTACATATACACAAAGGGCAACCGGTACTATGCGGGTCTAATGGCTGCCCTGCTTGATCCTAGGAAGGAGTATTTCACTTCCAGTTCTAGAGTCATATCGTGCGAGGATCACGGAATCTTGGGAAGATATAAGAGTCTAGATGCTGTGGTTGGCTGCAGTTATTCTAATGTTTTGATCCTTGATGATACAGAAGAGGCATGGGCAAAGGAAAGCCGGGACAATCTAATCGTTGTCGAGAAGTATTGTTTCTTTAGGCACAAAATGGGCCTAGCGAAATGCAAGTCTTATGCTGAGTTAAAGACTGATGAATGTGGATATCTTGCAGCACTTCTTGAAGTTCTTAAGGCATCCTGGAAACAGTTTCTTGACCAAATCAAGCCGGTGATCTGCCTAAGATGGAGGACTCTGCATTTTTGTAATGTGTTAGGCATCTTGGAAGAAGTTGAGACTTCTTTAAAAGAGGAAAAGAATATTCCATTCCATTTTCTGCTAAATGGCACTTCATTCGTTGAGGATCAATGCAAACTGACCGTGGCTTTAACTTTTCCGGCCAGAATAATTCGTCAAGAGAGAATGACAGCTACTGAAATAGTTGATGTTCCTCTGCTGTTGACCGTGCTCACAAGGCTCTTACCTCCTTCACAAATGGCCATTCTTGTCAAATTGCTTAACAATTACAGGCACAGAAAAATAGCCAACAAAAGCTGA

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

351

Amino Acids

40.22

Weight (kDa)

7.98

Isoelectric Point (pI)

37.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	53 - 209	3.3e-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)
AciI	CCGC	1 cut(s)	377
AclI	AACGTT	1 cut(s)	23
AclWI	GGATC	5 cut(s)	57, 395, 459, 514, 867
AcoI	YGGCCR	2 cut(s)	894, 993
AcuI	CTGAAG	1 cut(s)	240
AfaI	GTAC	2 cut(s)	347, 371
AfiI	CCNNNNNNNGG	2 cut(s)	294, 306
AflII	CTTAAG	1 cut(s)	686
AgeI	ACCGGT	1 cut(s)	366
AgsI	TTSAA	3 cut(s)	93, 275, 680
AjnI	CCWGG	1 cut(s)	695
AluBI	AGCT	5 cut(s)	154, 292, 343, 926, 1050
AluI	AGCT	5 cut(s)	154, 292, 343, 926, 1050
Alw21I	GWGCWC	2 cut(s)	127, 966
Alw26I	GTCTC	3 cut(s)	18, 137, 785
AlwI	GGATC	5 cut(s)	57, 395, 459, 514, 867
AlwNI	CAGNNNCTG	1 cut(s)	929
AoxI	GGCC	4 cut(s)	296, 610, 894, 993
ApeKI	GCWGC	3 cut(s)	389, 498, 668
ArsI	GACNNNNNNTTYG	2 cut(s)	611, 643
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)	277, 739
AvrII	CCTAGG	1 cut(s)	404
BalI	TGGCCA	1 cut(s)	995
Bbv12I	GWGCWC	2 cut(s)	127, 966
BbvI	GCAGC	3 cut(s)	376, 485, 680
BccI	CCATC	2 cut(s)	255, 735
BcgI	CGANNNNNNTGC	2 cut(s)	832, 866
BciT130I	CCWGG	1 cut(s)	697
BclI	TGATCA	2 cut(s)	175, 282
BcnI	CCSGG	1 cut(s)	560
BcoDI	GTCTC	3 cut(s)	18, 137, 785
BfaI	CTAG	4 cut(s)	405, 432, 482, 614
BfmI	CTRYAG	1 cut(s)	499
BfrI	CTTAAG	1 cut(s)	686
BisI	GCNGC	3 cut(s)	390, 499, 669
BlnI	CCTAGG	1 cut(s)	404
BlsI	GCNGC	3 cut(s)	391, 500, 670
Bme1390I	CCNGG	2 cut(s)	560, 697
BmgT120I	GGNCC	2 cut(s)	297, 610
BmiI	GGNNCC	1 cut(s)	244
BmrFI	CCNGG	2 cut(s)	560, 697
BmsI	GCATC	3 cut(s)	475, 701, 783
BpmI	CTGGAG	2 cut(s)	130, 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
BsaJI	CCNNGG	2 cut(s)	404, 876
BsaWI	WCCGGW	1 cut(s)	366
Bsc4I	CCNNNNNNNGG	2 cut(s)	294, 306
Bse118I	RCCGGY	2 cut(s)	366, 724
Bse1I	ACTGG	1 cut(s)	426
Bse8I	GATNNNNATC	1 cut(s)	174
BseBI	CCWGG	1 cut(s)	697
BseDI	CCNNGG	2 cut(s)	404, 876
BseGI	GGATG	3 cut(s)	247, 325, 692
BseJI	GATNNNNATC	1 cut(s)	174
BseLI	CCNNNNNNNGG	2 cut(s)	294, 306
BseMII	CTCAG	3 cut(s)	119, 307, 627
BseNI	ACTGG	1 cut(s)	426
BseRI	GAGGAG	1 cut(s)	176
BseXI	GCAGC	3 cut(s)	376, 485, 680
BshFI	GGCC	4 cut(s)	298, 612, 896, 995
BshTI	ACCGGT	1 cut(s)	366
BsiHKAI	GWGCWC	2 cut(s)	127, 966
BsiSI	CCGG	4 cut(s)	367, 559, 725, 893
BslFI	GGGAC	1 cut(s)	575
BslI	CCNNNNNNNGG	2 cut(s)	294, 306
BsmAI	GTCTC	3 cut(s)	18, 137, 785
BsmFI	GGGAC	1 cut(s)	575
BsnI	GGCC	4 cut(s)	298, 612, 896, 995
Bsp1286I	GDGCHC	2 cut(s)	127, 966
Bsp1407I	TGTACA	1 cut(s)	345
BspACI	CCGC	1 cut(s)	377
BspANI	GGCC	4 cut(s)	298, 612, 896, 995
BspCNI	CTCAG	3 cut(s)	120, 306, 628
BspLI	GGNNCC	1 cut(s)	244
BspMAI	CTGCAG	1 cut(s)	503
BspPI	GGATC	5 cut(s)	57, 395, 459, 514, 867
BspTI	CTTAAG	1 cut(s)	686
BsrFI	RCCGGY	2 cut(s)	366, 724
BsrGI	TGTACA	1 cut(s)	345
BsrI	ACTGG	1 cut(s)	426
BssAI	RCCGGY	2 cut(s)	366, 724
BssECI	CCNNGG	2 cut(s)	404, 876
BssT1I	CCWWGG	1 cut(s)	404
Bst2UI	CCWGG	1 cut(s)	697
Bst4CI	ACNGT	4 cut(s)	280, 705, 877, 961
Bst6I	CTCTTC	1 cut(s)	531
BstAFI	CTTAAG	1 cut(s)	686
BstAUI	TGTACA	1 cut(s)	345
BstC8I	GCNNGC	1 cut(s)	328
BstDEI	CTNAG	4 cut(s)	128, 293, 636, 737
BstDSI	CCRYGG	1 cut(s)	876
BstF5I	GGATG	3 cut(s)	247, 325, 692
BstMAI	GTCTC	3 cut(s)	18, 137, 785
BstMWI	GCNNNNNNNGC	1 cut(s)	970
BstNI	CCWGG	1 cut(s)	697
BstSCI	CCNGG	2 cut(s)	558, 695
BstSFI	CTRYAG	1 cut(s)	499
BstV1I	GCAGC	3 cut(s)	376, 485, 680
BstX2I	RGATCY	1 cut(s)	49
BstYI	RGATCY	1 cut(s)	49
BsuRI	GGCC	4 cut(s)	298, 612, 896, 995
BtgI	CCRYGG	1 cut(s)	876
BtsCI	GGATG	3 cut(s)	247, 325, 692
BtsIMutI	CAGTG	1 cut(s)	125
Cac8I	GCNNGC	1 cut(s)	328
CaiI	CAGNNNCTG	1 cut(s)	929
Cfr10I	RCCGGY	2 cut(s)	366, 724
Cfr13I	GGNCC	2 cut(s)	297, 610
Csp6I	GTAC	2 cut(s)	346, 370
CspAI	ACCGGT	1 cut(s)	366
CviAII	CATG	2 cut(s)	86, 543
CviQI	GTAC	2 cut(s)	346, 370
DdeI	CTNAG	4 cut(s)	128, 293, 636, 737
DraI	TTTAAA	1 cut(s)	801
EaeI	YGGCCR	2 cut(s)	894, 993
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
EcoO109I	RGGNCCY	1 cut(s)	297
EcoRII	CCWGG	1 cut(s)	695
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)	70, 87, 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
Fnu4HI	GCNGC	3 cut(s)	390, 499, 669
FokI	GGATG	3 cut(s)	234, 332, 679
Fsp4HI	GCNGC	3 cut(s)	390, 499, 669
FspBI	CTAG	4 cut(s)	405, 432, 482, 614
GluI	GCNGC	3 cut(s)	390, 499, 669
GsuI	CTGGAG	2 cut(s)	130, 328
HaeIII	GGCC	4 cut(s)	298, 612, 896, 995
HapII	CCGG	4 cut(s)	367, 559, 725, 893
Hin1II	CATG	2 cut(s)	89, 546
HincII	GTYRAC	1 cut(s)	957
HindII	GTYRAC	1 cut(s)	957
HinfI	GANTC	6 cut(s)	130, 312, 435, 459, 478, 748
HpaII	CCGG	4 cut(s)	367, 559, 725, 893
HphI	GGTGA	2 cut(s)	277, 739
Hpy166II	GTNNAC	1 cut(s)	957
Hpy188I	TCNGA	2 cut(s)	213, 242
Hpy8I	GTNNAC	1 cut(s)	957
HpyAV	CCTTC	4 cut(s)	31, 84, 403, 993
HpyCH4III	ACNGT	4 cut(s)	280, 705, 877, 961
HpyCH4IV	ACGT	1 cut(s)	23
HpyCH4V	TGCA	5 cut(s)	501, 624, 668, 754, 867
HpyF10VI	GCNNNNNNNGC	1 cut(s)	970
HpyF3I	CTNAG	4 cut(s)	128, 293, 636, 737
HpySE526I	ACGT	1 cut(s)	23
Hsp92II	CATG	2 cut(s)	89, 546
Ksp22I	TGATCA	2 cut(s)	175, 282
LmnI	GCTCC	1 cut(s)	159
Lsp1109I	GCAGC	3 cut(s)	376, 485, 680
LweI	GCATC	3 cut(s)	475, 701, 783
MaeI	CTAG	4 cut(s)	405, 432, 482, 614
MaeII	ACGT	1 cut(s)	23
MboII	GAAGA	7 cut(s)	69, 93, 233, 236, 480, 548, 794
MflI	RGATCY	1 cut(s)	49
MhlI	GDGCHC	2 cut(s)	127, 966
MlsI	TGGCCA	1 cut(s)	995
MluCI	AATT	6 cut(s)	94, 112, 136, 903, 1007, 1018
MluNI	TGGCCA	1 cut(s)	995
MlyI	GAGTC	4 cut(s)	139, 444, 487, 742
MmeI	TCCRAC	1 cut(s)	165
MnlI	CCTC	9 cut(s)	197, 261, 442, 532, 738, 799, 850, 957, 990
Mox20I	TGGCCA	1 cut(s)	995
MscI	TGGCCA	1 cut(s)	995
MseI	TTAA	5 cut(s)	641, 687, 800, 884, 1014
MslI	CAYNNNNRTG	1 cut(s)	258
Msp20I	TGGCCA	1 cut(s)	995
MspCI	CTTAAG	1 cut(s)	686
MspI	CCGG	4 cut(s)	367, 559, 725, 893
MspR9I	CCNGG	2 cut(s)	560, 697
MvaI	CCWGG	1 cut(s)	697
MwoI	GCNNNNNNNGC	1 cut(s)	970
NciI	CCSGG	1 cut(s)	560
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)	695
PinAI	ACCGGT	1 cut(s)	366
PkrI	GCNGC	3 cut(s)	391, 500, 670
PleI	GAGTC	4 cut(s)	138, 443, 486, 742
PpsI	GAGTC	4 cut(s)	138, 443, 486, 742
Psp1406I	AACGTT	1 cut(s)	23
Psp6I	CCWGG	1 cut(s)	695
PspGI	CCWGG	1 cut(s)	695
PspN4I	GGNNCC	1 cut(s)	244
PspPI	GGNCC	2 cut(s)	297, 610
PstI	CTGCAG	1 cut(s)	503
PstNI	CAGNNNCTG	1 cut(s)	929
PsuI	RGATCY	1 cut(s)	49
RsaI	GTAC	2 cut(s)	347, 371
RsaNI	GTAC	2 cut(s)	346, 370
RseI	CAYNNNNRTG	1 cut(s)	258
SaqAI	TTAA	5 cut(s)	641, 687, 800, 884, 1014
SatI	GCNGC	3 cut(s)	390, 499, 669
Sau96I	GGNCC	2 cut(s)	297, 610
SchI	GAGTC	4 cut(s)	139, 444, 487, 742
ScrFI	CCNGG	2 cut(s)	560, 697
SduI	GDGCHC	2 cut(s)	127, 966
SetI	ASST	8 cut(s)	26, 156, 220, 294, 345, 928, 982, 1052
SfaNI	GCATC	3 cut(s)	475, 701, 783
SfcI	CTRYAG	1 cut(s)	499
SmiMI	CAYNNNNRTG	1 cut(s)	258
SmlI	CTYRAG	2 cut(s)	233, 686
SmoI	CTYRAG	2 cut(s)	233, 686
Sse9I	AATT	6 cut(s)	94, 112, 136, 903, 1007, 1018
SsiI	CCGC	1 cut(s)	377
SspI	AATATT	1 cut(s)	817
SspMI	CTAG	4 cut(s)	405, 432, 482, 614
StyD4I	CCNGG	2 cut(s)	558, 695
StyI	CCWWGG	1 cut(s)	404
TaaI	ACNGT	4 cut(s)	280, 705, 877, 961
TaiI	ACGT	1 cut(s)	26
TaqI	TCGA	2 cut(s)	256, 579
TasI	AATT	6 cut(s)	94, 112, 136, 903, 1007, 1018
TatI	WGTACW	1 cut(s)	345
TfiI	GAWTC	2 cut(s)	312, 459
Tru1I	TTAA	5 cut(s)	641, 687, 800, 884, 1014
Tru9I	TTAA	5 cut(s)	641, 687, 800, 884, 1014
TscAI	CASTG	1 cut(s)	132
TseI	GCWGC	3 cut(s)	389, 498, 668
TspDTI	ATGAA	5 cut(s)	57, 74, 336, 666, 837
TspGWI	ACGGA	1 cut(s)	471
TspRI	CASTG	1 cut(s)	132
Vha464I	CTTAAG	1 cut(s)	686
XbaI	TCTAGA	2 cut(s)	431, 481
XmaJI	CCTAGG	1 cut(s)	404
XspI	CTAG	4 cut(s)	405, 432, 482, 614

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