Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0004854

Physical Location & Seq

Genomic Coordinates Forward (+)

81501595 .. 81502623

Gene Structure 1029 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG527800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGAAGCAAGCGGACGATCGCATTTCTTCGAATCTTCATAGAGCACTGAACTTGAATTCCAAGTCTTGTTCGTCTCAAAACAGGAAACTACACTTGGTACTTGATCTAGATCACACACTACTGCACTCCACCGAACTCGATCATGTGACTCCCCAAGAAGAATACTTGAAGACCAAAACAGATGATCATTCTCTGGAAGGTGATGTTTTCATGGATTCAACCATGATAACCAAGTTGAGGCCCTTTGTCAGGACATTTCTCAAGGAAGCCAGTCACATGTTTGAGATGCACATATACACAACAGGCAATCGAGCTTATGCATTGCGAATGGCTGAGTTGCTTGACCCCGAACAAGAGTACTTCTTCACTTCTAGCTCTAGAGTAATATCGTGCAACGACCACAGCTCCCGAGGACAAAAGAAGTGTCTAGATCTTGTGCGTGGTTGTGAAGATTCTAATGTCTTGATCCTTGACGATACACGAGAGGCATGGACAAAGGAAAATCAGGACAATTTGATAGTAATAAGACGATATTATTTCTTCAAATACAGTTCTCAAACAATGTGCCTCAATAACCGCAAGTCTCTTGCCGAGTTGAAGACGGGTGAAAATGATTATCTTGAACATATTCTTCAGCTTCTTAAGCAAGTCCACGCTATGTTCTTTGTTCATAAGCTGCCCAACAAGAATCACTTTGGAAATGATGTAAGGCAGGTGTTAAAGACTCTTCGGAAACGAGTGTTGAAAGGCTGTGAGATCGTTTTCGACTGTCATGATTTAACTAGAATCAATAATATTTGGAAAATGGCAGAGGAGTTGGGAGCAACTTGTTCAACTCGAGTGGATGCACCATCAGTCACCCATGTGATTGCAACAAATACTCGAACCAAGAATTCTCTTCTGGCAGTGAAGAATAAGAAGCTGTTGGTCCGCCGAGAATGGATTGAATCTGCAAGTTACATGTGGGAGAAGCAACCTGAACACAAGTTCTTTGTCCCAACTACAGAAACTTACATTAATTGTGACTAA

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

342

Amino Acids

39.95

Weight (kDa)

8.28

Isoelectric Point (pI)

47.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	31 - 182	1.2e-24	NLI interacting factor-like phosphatase
BRCT	PF00533	246 - 315	5.3e-07	BRCA1 C Terminus (BRCT) domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)	703
Acc36I	ACCTGC	1 cut(s)	703
AciI	CCGC	3 cut(s)	11, 577, 931
AclWI	GGATC	1 cut(s)	460
AcsI	RAATTY	2 cut(s)	55, 892
AcuI	CTGAAG	1 cut(s)	617
AfaI	GTAC	2 cut(s)	99, 359
AfiI	CCNNNNNNNGG	2 cut(s)	237, 249
AflII	CTTAAG	1 cut(s)	641
AflIII	ACRYGT	2 cut(s)	276, 960
AgsI	TTSAA	9 cut(s)	55, 169, 219, 544, 598, 623, 745, 834, 947
AjuI	GAANNNNNNNTTGG	2 cut(s)	77, 109
AleI	CACNNNNGTG	1 cut(s)	863
AloI	GAACNNNNNNTCC	2 cut(s)	41, 73
AluBI	AGCT	6 cut(s)	314, 375, 405, 637, 676, 922
AluI	AGCT	6 cut(s)	314, 375, 405, 637, 676, 922
Alw21I	GWGCWC	1 cut(s)	46
Alw26I	GTCTC	2 cut(s)	78, 588
AlwI	GGATC	1 cut(s)	460
Ama87I	CYCGRG	2 cut(s)	408, 837
AoxI	GGCC	1 cut(s)	239
ApeKI	GCWGC	1 cut(s)	676
ApoI	RAATTY	2 cut(s)	55, 892
ArsI	GACNNNNNNTTYG	2 cut(s)	409, 441
AseI	ATTAAT	1 cut(s)	1017
Asp700I	GAANNNNTTC	1 cut(s)	627
AspS9I	GGNCC	2 cut(s)	240, 928
AsuHPI	GGTGA	3 cut(s)	212, 617, 850
AsuII	TTCGAA	1 cut(s)	29
AvaI	CYCGRG	2 cut(s)	408, 837
AvaII	GGWCC	1 cut(s)	928
BauI	CACGAG	1 cut(s)	480
BbsI	GAAGAC	2 cut(s)	176, 605
Bbv12I	GWGCWC	1 cut(s)	46
BbvI	GCAGC	1 cut(s)	663
BccI	CCATC	1 cut(s)	859
BclI	TGATCA	1 cut(s)	184
BcoDI	GTCTC	2 cut(s)	78, 588
BfaI	CTAG	5 cut(s)	107, 372, 378, 428, 783
BfmI	CTRYAG	1 cut(s)	1002
BfrI	CTTAAG	1 cut(s)	641
BfuAI	ACCTGC	1 cut(s)	703
BglII	AGATCT	1 cut(s)	430
BisI	GCNGC	1 cut(s)	677
BlsI	GCNGC	1 cut(s)	678
BmcAI	AGTACT	1 cut(s)	359
Bme18I	GGWCC	1 cut(s)	928
BmeT110I	CYCGRG	2 cut(s)	408, 837
BmgT120I	GGNCC	2 cut(s)	240, 928
BmsI	GCATC	2 cut(s)	276, 835
BpiI	GAAGAC	2 cut(s)	176, 605
Bpu14I	TTCGAA	1 cut(s)	29
BpuEI	CTTGAG	1 cut(s)	245
BsaBI	GATNNNNATC	1 cut(s)	108
BsaJI	CCNNGG	1 cut(s)	409
BsaXI	ACNNNNNCTCC	2 cut(s)	389, 419
Bsc4I	CCNNNNNNNGG	2 cut(s)	237, 249
Bse1I	ACTGG	1 cut(s)	270
Bse3DI	GCAATG	1 cut(s)	320
Bse8I	GATNNNNATC	1 cut(s)	108
BseDI	CCNNGG	1 cut(s)	409
BseGI	GGATG	1 cut(s)	850
BseJI	GATNNNNATC	1 cut(s)	108
BseLI	CCNNNNNNNGG	2 cut(s)	237, 249
BseMI	GCAATG	1 cut(s)	320
BseMII	CTCAG	1 cut(s)	324
BseNI	ACTGG	1 cut(s)	270
BseRI	GAGGAG	1 cut(s)	827
BseXI	GCAGC	1 cut(s)	663
BsgI	GTGCAG	1 cut(s)	107
Bsh1285I	CGRYCG	1 cut(s)	19
BshFI	GGCC	1 cut(s)	241
BsiEI	CGRYCG	1 cut(s)	19
BsiHKAI	GWGCWC	1 cut(s)	46
BsiHKCI	CYCGRG	2 cut(s)	408, 837
BslFI	GGGAC	1 cut(s)	980
BslI	CCNNNNNNNGG	2 cut(s)	237, 249
BsmAI	GTCTC	2 cut(s)	78, 588
BsmBI	CGTCTC	1 cut(s)	78
BsmFI	GGGAC	1 cut(s)	980
BsnI	GGCC	1 cut(s)	241
BsoBI	CYCGRG	2 cut(s)	408, 837
Bsp119I	TTCGAA	1 cut(s)	29
Bsp1286I	GDGCHC	1 cut(s)	46
Bsp143I	GATC	8 cut(s)	16, 103, 109, 139, 184, 430, 465, 756
BspACI	CCGC	3 cut(s)	11, 577, 931
BspANI	GGCC	1 cut(s)	241
BspCNI	CTCAG	1 cut(s)	325
BspHI	TCATGA	1 cut(s)	772
BspMI	ACCTGC	1 cut(s)	703
BspPI	GGATC	1 cut(s)	460
BspT104I	TTCGAA	1 cut(s)	29
BspTI	CTTAAG	1 cut(s)	641
BsrDI	GCAATG	1 cut(s)	320
BsrI	ACTGG	1 cut(s)	270
BssECI	CCNNGG	1 cut(s)	409
BssMI	GATC	8 cut(s)	16, 103, 109, 139, 184, 430, 465, 756
BssSI	CACGAG	1 cut(s)	480
Bst2BI	CACGAG	1 cut(s)	480
Bst4CI	ACNGT	2 cut(s)	551, 770
Bst6I	CTCTTC	2 cut(s)	732, 903
BstAFI	CTTAAG	1 cut(s)	641
BstBI	TTCGAA	1 cut(s)	29
BstC8I	GCNNGC	1 cut(s)	9
BstDEI	CTNAG	1 cut(s)	333
BstENI	CCTNNNNNAGG	1 cut(s)	247
BstF5I	GGATG	1 cut(s)	850
BstKTI	GATC	8 cut(s)	19, 106, 112, 142, 187, 433, 468, 759
BstMAI	GTCTC	2 cut(s)	78, 588
BstMBI	GATC	8 cut(s)	16, 103, 109, 139, 184, 430, 465, 756
BstMCI	CGRYCG	1 cut(s)	19
BstMWI	GCNNNNNNNGC	1 cut(s)	643
BstNSI	RCATGY	2 cut(s)	280, 964
BstSFI	CTRYAG	1 cut(s)	1002
BstV1I	GCAGC	1 cut(s)	663
BstV2I	GAAGAC	2 cut(s)	176, 605
BstX2I	RGATCY	1 cut(s)	430
BstYI	RGATCY	1 cut(s)	430
BsuRI	GGCC	1 cut(s)	241
BtsCI	GGATG	1 cut(s)	850
BtsI	GCAGTG	1 cut(s)	912
BtsIMutI	CAGTG	2 cut(s)	44, 912
BveI	ACCTGC	1 cut(s)	703
Cac8I	GCNNGC	1 cut(s)	9
CciI	TCATGA	1 cut(s)	772
Cfr13I	GGNCC	2 cut(s)	240, 928
Csp6I	GTAC	2 cut(s)	98, 358
CspCI	CAANNNNNGTGG	2 cut(s)	822, 857
CviAII	CATG	8 cut(s)	143, 211, 223, 277, 489, 773, 863, 961
CviQI	GTAC	2 cut(s)	98, 358
DdeI	CTNAG	1 cut(s)	333
DpnI	GATC	8 cut(s)	18, 105, 111, 141, 186, 432, 467, 758
DpnII	GATC	8 cut(s)	16, 103, 109, 139, 184, 430, 465, 756
Eam1104I	CTCTTC	2 cut(s)	732, 903
EarI	CTCTTC	2 cut(s)	732, 903
EciI	GGCGGA	1 cut(s)	920
Eco47I	GGWCC	1 cut(s)	928
Eco57I	CTGAAG	1 cut(s)	617
Eco88I	CYCGRG	2 cut(s)	408, 837
EcoNI	CCTNNNNNAGG	1 cut(s)	247
EcoO109I	RGGNCCY	1 cut(s)	240
EcoRI	GAATTC	2 cut(s)	55, 892
EcoT22I	ATGCAT	1 cut(s)	322
Esp3I	CGTCTC	1 cut(s)	78
FaeI	CATG	8 cut(s)	146, 214, 226, 280, 492, 776, 866, 964
FalI	AAGNNNNNCTT	2 cut(s)	677, 709
FaqI	GGGAC	1 cut(s)	980
FatI	CATG	8 cut(s)	142, 210, 222, 276, 488, 772, 862, 960
FbaI	TGATCA	1 cut(s)	184
Fnu4HI	GCNGC	1 cut(s)	677
FokI	GGATG	1 cut(s)	857
Fsp4HI	GCNGC	1 cut(s)	677
FspBI	CTAG	5 cut(s)	107, 372, 378, 428, 783
GluI	GCNGC	1 cut(s)	677
HaeIII	GGCC	1 cut(s)	241
Hin1II	CATG	8 cut(s)	146, 214, 226, 280, 492, 776, 866, 964
HinfI	GANTC	8 cut(s)	31, 148, 215, 452, 688, 724, 786, 947
HphI	GGTGA	3 cut(s)	212, 617, 850
Hpy166II	GTNNAC	1 cut(s)	652
Hpy188I	TCNGA	1 cut(s)	732
Hpy8I	GTNNAC	1 cut(s)	652
HpyAV	CCTTC	1 cut(s)	191
HpyCH4III	ACNGT	2 cut(s)	551, 770
HpyCH4V	TGCA	7 cut(s)	124, 289, 320, 393, 848, 872, 953
HpyF10VI	GCNNNNNNNGC	1 cut(s)	643
HpyF3I	CTNAG	1 cut(s)	333
Hsp92II	CATG	8 cut(s)	146, 214, 226, 280, 492, 776, 866, 964
Ksp22I	TGATCA	1 cut(s)	184
Kzo9I	GATC	8 cut(s)	16, 103, 109, 139, 184, 430, 465, 756
LmnI	GCTCC	2 cut(s)	410, 821
LpnPI	CCDG	9 cut(s)	67, 179, 235, 283, 288, 491, 698, 887, 990
Lsp1109I	GCAGC	1 cut(s)	663
LweI	GCATC	2 cut(s)	276, 835
MaeI	CTAG	5 cut(s)	107, 372, 378, 428, 783
MaeIII	GTNAC	5 cut(s)	145, 272, 856, 956, 1022
MalI	GATC	8 cut(s)	18, 105, 111, 141, 186, 432, 467, 758
MboI	GATC	8 cut(s)	16, 103, 109, 139, 184, 430, 465, 756
MflI	RGATCY	1 cut(s)	430
MhlI	GDGCHC	1 cut(s)	46
MluCI	AATT	4 cut(s)	55, 511, 892, 1018
MlyI	GAGTC	2 cut(s)	142, 718
MnlI	CCTC	5 cut(s)	231, 404, 478, 578, 805
Mph1103I	ATGCAT	1 cut(s)	322
MroXI	GAANNNNTTC	1 cut(s)	627
MseI	TTAA	4 cut(s)	642, 719, 779, 1017
MslI	CAYNNNNRTG	1 cut(s)	863
MspCI	CTTAAG	1 cut(s)	641
MwoI	GCNNNNNNNGC	1 cut(s)	643
NdeII	GATC	8 cut(s)	16, 103, 109, 139, 184, 430, 465, 756
NlaIII	CATG	8 cut(s)	146, 214, 226, 280, 492, 776, 866, 964
NmeAIII	GCCGAG	2 cut(s)	616, 959
NmuCI	GTSAC	4 cut(s)	145, 272, 856, 1022
NsiI	ATGCAT	1 cut(s)	322
NspI	RCATGY	2 cut(s)	280, 964
NspV	TTCGAA	1 cut(s)	29
OliI	CACNNNNGTG	1 cut(s)	863
PaeR7I	CTCGAG	1 cut(s)	837
PagI	TCATGA	1 cut(s)	772
PaqCI	CACCTGC	1 cut(s)	703
PciI	ACATGT	2 cut(s)	276, 960
PdmI	GAANNNNTTC	1 cut(s)	627
PfeI	GAWTC	6 cut(s)	31, 215, 452, 688, 786, 947
PkrI	GCNGC	1 cut(s)	678
Ple19I	CGATCG	1 cut(s)	19
PleI	GAGTC	2 cut(s)	142, 718
PpsI	GAGTC	2 cut(s)	142, 718
PscI	ACATGT	2 cut(s)	276, 960
PshBI	ATTAAT	1 cut(s)	1017
PspPI	GGNCC	2 cut(s)	240, 928
PspXI	VCTCGAGB	1 cut(s)	837
PsuI	RGATCY	1 cut(s)	430
PvuI	CGATCG	1 cut(s)	19
RsaI	GTAC	2 cut(s)	99, 359
RsaNI	GTAC	2 cut(s)	98, 358
RseI	CAYNNNNRTG	1 cut(s)	863
SaqAI	TTAA	4 cut(s)	642, 719, 779, 1017
SatI	GCNGC	1 cut(s)	677
Sau3AI	GATC	8 cut(s)	16, 103, 109, 139, 184, 430, 465, 756
Sau96I	GGNCC	2 cut(s)	240, 928
ScaI	AGTACT	1 cut(s)	359
SchI	GAGTC	2 cut(s)	142, 718
SduI	GDGCHC	1 cut(s)	46
SetI	ASST	9 cut(s)	202, 316, 377, 407, 639, 678, 717, 924, 979
SfaNI	GCATC	2 cut(s)	276, 835
SfcI	CTRYAG	1 cut(s)	1002
Sfr274I	CTCGAG	1 cut(s)	837
SfuI	TTCGAA	1 cut(s)	29
SinI	GGWCC	1 cut(s)	928
SlaI	CTCGAG	1 cut(s)	837
SmiMI	CAYNNNNRTG	1 cut(s)	863
SmlI	CTYRAG	3 cut(s)	260, 641, 837
SmoI	CTYRAG	3 cut(s)	260, 641, 837
Sse9I	AATT	4 cut(s)	55, 511, 892, 1018
SsiI	CCGC	3 cut(s)	11, 577, 931
SspI	AATATT	1 cut(s)	796
SspMI	CTAG	5 cut(s)	107, 372, 378, 428, 783
TaaI	ACNGT	2 cut(s)	551, 770
TaqI	TCGA	6 cut(s)	29, 138, 310, 765, 838, 883
TasI	AATT	4 cut(s)	55, 511, 892, 1018
TatI	WGTACW	1 cut(s)	357
TfiI	GAWTC	6 cut(s)	31, 215, 452, 688, 786, 947
Tru1I	TTAA	4 cut(s)	642, 719, 779, 1017
Tru9I	TTAA	4 cut(s)	642, 719, 779, 1017
TscAI	CASTG	2 cut(s)	51, 912
TseFI	GTSAC	4 cut(s)	145, 272, 856, 1022
TseI	GCWGC	1 cut(s)	676
Tsp45I	GTSAC	4 cut(s)	145, 272, 856, 1022
TspDTI	ATGAA	4 cut(s)	17, 26, 199, 659
TspRI	CASTG	2 cut(s)	51, 912
Vha464I	CTTAAG	1 cut(s)	641
VpaK11BI	GGWCC	1 cut(s)	928
VspI	ATTAAT	1 cut(s)	1017
XagI	CCTNNNNNAGG	1 cut(s)	247
XapI	RAATTY	2 cut(s)	55, 892
XbaI	TCTAGA	3 cut(s)	106, 377, 427
XceI	RCATGY	2 cut(s)	280, 964
XhoI	CTCGAG	1 cut(s)	837
XmnI	GAANNNNTTC	1 cut(s)	627
XspI	CTAG	5 cut(s)	107, 372, 378, 428, 783
ZrmI	AGTACT	1 cut(s)	359
Zsp2I	ATGCAT	1 cut(s)	322

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