Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0001341

Physical Location & Seq

Genomic Coordinates Reverse (-)

39401858 .. 39404526

Gene Structure 2669 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG309600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 753 bp

ATGGCTACTGTTTCGCCGGATGTCAATGGTAATGTTTCATTTCCAAAAGCTTCTTCTTTTCAAGTTTCAAAATGTTCTTCTAACCCTAATTTTGCCAGAGCACTGAGTTTCAATTCCAACTCCAGAAAGCTCCACTTGGTTCTTGATCTGGATCACACACTCCTCCACACCACTAAACTCTGTAATCTGACACCTGAAGAAGACTATCTCAAGATCGGAACCCATCCTCATCGAGATGTTTTCGTGCTTGAAACTGTGATCACCAAGCTCAGGCCCTTTGTCTGGAGATTCTTGGATGAAGCCAGCAAGATGTTTGAGCTGTACATATACACAAAGGGTAACCGGTACTATGCGGGTCTAATGGCTGCCCTGCTTGATCCTAGGAAGGAGTATTTCCCTTCCAGTTCTAGAGTCATATCGTGCGAGGATCACGGAATCGTGGGGCGATACAAGAGTCTGGATGCTGTGGTTGGCTGCAATTATTCTAATGTTTTGATCCTTGATGATACAGAAGAGGCATGGACAGAGGAAAGCCGGGACAATCTAATCGTTGTCGACAAGTATTGTTTCTTTAGGCACAAAATGGGCCTAGCTAAGTCTCATGCTGAGTTAAAGACTGATGAATGTGGATATCTTGCAGCACTTCTTGAAGTGCTTAAGGTAATCAACCGTGTCTTCTGTGATGAACTAGCCAGAAATCCTTCTGGTGTAGATGTGAGGGATGTGTTACAACTGTTTGAAAACAATTGTTGA

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

250

Amino Acids

28.43

Weight (kDa)

6.07

Isoelectric Point (pI)

30.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	45 - 190	1e-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: 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)	555
AciI	CCGC	1 cut(s)	353
AclWI	GGATC	4 cut(s)	159, 371, 435, 490
AcuI	CTGAAG	1 cut(s)	216
AfaI	GTAC	2 cut(s)	323, 347
AfiI	CCNNNNNNNGG	2 cut(s)	270, 282
AflII	CTTAAG	1 cut(s)	656
AgeI	ACCGGT	1 cut(s)	342
AgsI	TTSAA	6 cut(s)	62, 69, 112, 251, 650, 740
AjuI	GAANNNNNNNTTGG	2 cut(s)	37, 69
AluBI	AGCT	5 cut(s)	50, 130, 268, 319, 593
AluI	AGCT	5 cut(s)	50, 130, 268, 319, 593
Alw21I	GWGCWC	1 cut(s)	103
Alw26I	GTCTC	1 cut(s)	603
AlwI	GGATC	4 cut(s)	159, 371, 435, 490
AoxI	GGCC	2 cut(s)	272, 586
ApeKI	GCWGC	3 cut(s)	365, 474, 638
AsiGI	ACCGGT	1 cut(s)	342
Asp700I	GAANNNNTTC	1 cut(s)	700
AspA2I	CCTAGG	1 cut(s)	380
AspS9I	GGNCC	2 cut(s)	273, 586
AsuC2I	CCSGG	1 cut(s)	536
AsuHPI	GGTGA	1 cut(s)	253
AvrII	CCTAGG	1 cut(s)	380
BaeI	ACNNNNGTAYC	2 cut(s)	439, 472
BbsI	GAAGAC	2 cut(s)	207, 667
Bbv12I	GWGCWC	1 cut(s)	103
BbvI	GCAGC	3 cut(s)	352, 461, 650
BccI	CCATC	1 cut(s)	231
BclI	TGATCA	1 cut(s)	258
BcnI	CCSGG	1 cut(s)	536
BcoDI	GTCTC	1 cut(s)	603
BfaI	CTAG	4 cut(s)	381, 408, 590, 689
BfrI	CTTAAG	1 cut(s)	656
BisI	GCNGC	3 cut(s)	366, 475, 639
BlnI	CCTAGG	1 cut(s)	380
BlsI	GCNGC	3 cut(s)	367, 476, 640
Bme1390I	CCNGG	1 cut(s)	536
BmgT120I	GGNCC	2 cut(s)	273, 586
BmiI	GGNNCC	1 cut(s)	220
BmrFI	CCNGG	1 cut(s)	536
BmsI	GCATC	1 cut(s)	451
BpiI	GAAGAC	2 cut(s)	207, 667
BpmI	CTGGAG	2 cut(s)	106, 304
Bpu10I	CCTNAGC	1 cut(s)	269
BpuEI	CTTGAG	1 cut(s)	194
BpuMI	CCSGG	1 cut(s)	536
BsaBI	GATNNNNATC	1 cut(s)	150
BsaJI	CCNNGG	1 cut(s)	380
BsaWI	WCCGGW	1 cut(s)	342
Bsc4I	CCNNNNNNNGG	2 cut(s)	270, 282
Bse118I	RCCGGY	1 cut(s)	342
Bse1I	ACTGG	1 cut(s)	402
Bse8I	GATNNNNATC	1 cut(s)	150
BseDI	CCNNGG	1 cut(s)	380
BseGI	GGATG	5 cut(s)	25, 223, 301, 466, 727
BseJI	GATNNNNATC	1 cut(s)	150
BseLI	CCNNNNNNNGG	2 cut(s)	270, 282
BseMII	CTCAG	3 cut(s)	95, 283, 597
BseNI	ACTGG	1 cut(s)	402
BseRI	GAGGAG	1 cut(s)	152
BseXI	GCAGC	3 cut(s)	352, 461, 650
BshFI	GGCC	2 cut(s)	274, 588
BshTI	ACCGGT	1 cut(s)	342
BsiHKAI	GWGCWC	1 cut(s)	103
BsiSI	CCGG	3 cut(s)	17, 343, 535
BslFI	GGGAC	1 cut(s)	551
BslI	CCNNNNNNNGG	2 cut(s)	270, 282
BsmAI	GTCTC	1 cut(s)	603
BsmFI	GGGAC	1 cut(s)	551
BsnI	GGCC	2 cut(s)	274, 588
Bsp1286I	GDGCHC	1 cut(s)	103
Bsp1407I	TGTACA	1 cut(s)	321
Bsp143I	GATC	7 cut(s)	145, 151, 213, 258, 376, 427, 495
BspACI	CCGC	1 cut(s)	353
BspANI	GGCC	2 cut(s)	274, 588
BspCNI	CTCAG	3 cut(s)	96, 282, 598
BspLI	GGNNCC	1 cut(s)	220
BspPI	GGATC	4 cut(s)	159, 371, 435, 490
BspTI	CTTAAG	1 cut(s)	656
BsrFI	RCCGGY	1 cut(s)	342
BsrGI	TGTACA	1 cut(s)	321
BsrI	ACTGG	1 cut(s)	402
BssAI	RCCGGY	1 cut(s)	342
BssECI	CCNNGG	1 cut(s)	380
BssMI	GATC	7 cut(s)	145, 151, 213, 258, 376, 427, 495
BssT1I	CCWWGG	1 cut(s)	380
Bst4CI	ACNGT	4 cut(s)	10, 256, 671, 735
Bst6I	CTCTTC	1 cut(s)	507
BstAFI	CTTAAG	1 cut(s)	656
BstAUI	TGTACA	1 cut(s)	321
BstC8I	GCNNGC	1 cut(s)	304
BstDEI	CTNAG	4 cut(s)	104, 269, 594, 606
BstEII	GGTNACC	1 cut(s)	338
BstF5I	GGATG	5 cut(s)	25, 223, 301, 466, 727
BstKTI	GATC	7 cut(s)	148, 154, 216, 261, 379, 430, 498
BstMAI	GTCTC	1 cut(s)	603
BstMBI	GATC	7 cut(s)	145, 151, 213, 258, 376, 427, 495
BstPI	GGTNACC	1 cut(s)	338
BstSCI	CCNGG	1 cut(s)	534
BstV1I	GCAGC	3 cut(s)	352, 461, 650
BstV2I	GAAGAC	2 cut(s)	207, 667
BsuRI	GGCC	2 cut(s)	274, 588
BtsCI	GGATG	5 cut(s)	25, 223, 301, 466, 727
BtsIMutI	CAGTG	1 cut(s)	101
Cac8I	GCNNGC	1 cut(s)	304
Cfr10I	RCCGGY	1 cut(s)	342
Cfr13I	GGNCC	2 cut(s)	273, 586
Csp6I	GTAC	2 cut(s)	322, 346
CspAI	ACCGGT	1 cut(s)	342
CviAII	CATG	2 cut(s)	519, 602
CviQI	GTAC	2 cut(s)	322, 346
DdeI	CTNAG	4 cut(s)	104, 269, 594, 606
DpnI	GATC	7 cut(s)	147, 153, 215, 260, 378, 429, 497
DpnII	GATC	7 cut(s)	145, 151, 213, 258, 376, 427, 495
Eam1104I	CTCTTC	1 cut(s)	507
EarI	CTCTTC	1 cut(s)	507
Eco130I	CCWWGG	1 cut(s)	380
Eco32I	GATATC	1 cut(s)	632
Eco57I	CTGAAG	1 cut(s)	216
Eco91I	GGTNACC	1 cut(s)	338
EcoO109I	RGGNCCY	1 cut(s)	273
EcoO65I	GGTNACC	1 cut(s)	338
EcoRV	GATATC	1 cut(s)	632
EcoT14I	CCWWGG	1 cut(s)	380
ErhI	CCWWGG	1 cut(s)	380
FaeI	CATG	2 cut(s)	522, 605
FaiI	YATR	6 cut(s)	326, 328, 351, 416, 520, 603
FalI	AAGNNNNNCTT	2 cut(s)	119, 151
FaqI	GGGAC	1 cut(s)	551
FatI	CATG	2 cut(s)	518, 601
FauI	CCCGC	1 cut(s)	346
FbaI	TGATCA	1 cut(s)	258
FblI	GTMKAC	1 cut(s)	555
Fnu4HI	GCNGC	3 cut(s)	366, 475, 639
FokI	GGATG	5 cut(s)	32, 210, 308, 473, 734
Fsp4HI	GCNGC	3 cut(s)	366, 475, 639
FspBI	CTAG	4 cut(s)	381, 408, 590, 689
GluI	GCNGC	3 cut(s)	366, 475, 639
GsuI	CTGGAG	2 cut(s)	106, 304
HaeIII	GGCC	2 cut(s)	274, 588
HapII	CCGG	3 cut(s)	17, 343, 535
Hin1II	CATG	2 cut(s)	522, 605
HincII	GTYRAC	1 cut(s)	556
HindII	GTYRAC	1 cut(s)	556
HindIII	AAGCTT	1 cut(s)	48
HinfI	GANTC	4 cut(s)	288, 411, 435, 454
HpaII	CCGG	3 cut(s)	17, 343, 535
HphI	GGTGA	1 cut(s)	253
Hpy166II	GTNNAC	1 cut(s)	556
Hpy188I	TCNGA	2 cut(s)	189, 218
Hpy188III	TCNNGA	9 cut(s)	123, 143, 149, 211, 233, 283, 408, 458, 647
Hpy8I	GTNNAC	1 cut(s)	556
HpyAV	CCTTC	3 cut(s)	379, 408, 711
HpyCH4III	ACNGT	4 cut(s)	10, 256, 671, 735
HpyCH4V	TGCA	2 cut(s)	477, 638
HpyF3I	CTNAG	4 cut(s)	104, 269, 594, 606
Hsp92II	CATG	2 cut(s)	522, 605
Ksp22I	TGATCA	1 cut(s)	258
Kzo9I	GATC	7 cut(s)	145, 151, 213, 258, 376, 427, 495
LmnI	GCTCC	1 cut(s)	135
Lsp1109I	GCAGC	3 cut(s)	352, 461, 650
LweI	GCATC	1 cut(s)	451
MaeI	CTAG	4 cut(s)	381, 408, 590, 689
MaeIII	GTNAC	2 cut(s)	338, 726
MalI	GATC	7 cut(s)	147, 153, 215, 260, 378, 429, 497
MboI	GATC	7 cut(s)	145, 151, 213, 258, 376, 427, 495
MboII	GAAGA	6 cut(s)	45, 69, 209, 212, 524, 667
MfeI	CAATTG	1 cut(s)	745
MhlI	GDGCHC	1 cut(s)	103
MluCI	AATT	4 cut(s)	88, 112, 478, 745
MlyI	GAGTC	2 cut(s)	420, 463
MmeI	TCCRAC	1 cut(s)	141
MnlI	CCTC	6 cut(s)	173, 237, 418, 508, 520, 711
MroXI	GAANNNNTTC	1 cut(s)	700
MseI	TTAA	2 cut(s)	611, 657
MslI	CAYNNNNRTG	1 cut(s)	234
MspCI	CTTAAG	1 cut(s)	656
MspI	CCGG	3 cut(s)	17, 343, 535
MspR9I	CCNGG	1 cut(s)	536
MunI	CAATTG	1 cut(s)	745
NciI	CCSGG	1 cut(s)	536
NdeII	GATC	7 cut(s)	145, 151, 213, 258, 376, 427, 495
NlaIII	CATG	2 cut(s)	522, 605
NlaIV	GGNNCC	1 cut(s)	220
PdmI	GAANNNNTTC	1 cut(s)	700
PfeI	GAWTC	2 cut(s)	288, 435
PinAI	ACCGGT	1 cut(s)	342
PkrI	GCNGC	3 cut(s)	367, 476, 640
PleI	GAGTC	2 cut(s)	419, 462
PpsI	GAGTC	2 cut(s)	419, 462
PspEI	GGTNACC	1 cut(s)	338
PspN4I	GGNNCC	1 cut(s)	220
PspPI	GGNCC	2 cut(s)	273, 586
RsaI	GTAC	2 cut(s)	323, 347
RsaNI	GTAC	2 cut(s)	322, 346
RseI	CAYNNNNRTG	1 cut(s)	234
SalI	GTCGAC	1 cut(s)	554
SaqAI	TTAA	2 cut(s)	611, 657
SatI	GCNGC	3 cut(s)	366, 475, 639
Sau3AI	GATC	7 cut(s)	145, 151, 213, 258, 376, 427, 495
Sau96I	GGNCC	2 cut(s)	273, 586
SchI	GAGTC	2 cut(s)	420, 463
ScrFI	CCNGG	1 cut(s)	536
SduI	GDGCHC	1 cut(s)	103
SetI	ASST	7 cut(s)	52, 132, 196, 270, 321, 595, 663
SfaNI	GCATC	1 cut(s)	451
SmiMI	CAYNNNNRTG	1 cut(s)	234
SmlI	CTYRAG	2 cut(s)	209, 656
SmoI	CTYRAG	2 cut(s)	209, 656
Sse9I	AATT	4 cut(s)	88, 112, 478, 745
SsiI	CCGC	1 cut(s)	353
SspMI	CTAG	4 cut(s)	381, 408, 590, 689
StyD4I	CCNGG	1 cut(s)	534
StyI	CCWWGG	1 cut(s)	380
TaaI	ACNGT	4 cut(s)	10, 256, 671, 735
TaqI	TCGA	2 cut(s)	232, 555
TasI	AATT	4 cut(s)	88, 112, 478, 745
TatI	WGTACW	1 cut(s)	321
TfiI	GAWTC	2 cut(s)	288, 435
Tru1I	TTAA	2 cut(s)	611, 657
Tru9I	TTAA	2 cut(s)	611, 657
TscAI	CASTG	1 cut(s)	108
TseI	GCWGC	3 cut(s)	365, 474, 638
TspDTI	ATGAA	4 cut(s)	27, 312, 636, 699
TspGWI	ACGGA	1 cut(s)	447
TspRI	CASTG	1 cut(s)	108
Vha464I	CTTAAG	1 cut(s)	656
XbaI	TCTAGA	1 cut(s)	407
XmaJI	CCTAGG	1 cut(s)	380
XmiI	GTMKAC	1 cut(s)	555
XmnI	GAANNNNTTC	1 cut(s)	700
XspI	CTAG	4 cut(s)	381, 408, 590, 689

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