Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0000221

Physical Location & Seq

Genomic Coordinates Reverse (-)

13269204 .. 13270451

Gene Structure 1248 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG089900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1248 bp

ATGACTGTGGCTACAGTCTCTCCAATTTTACACAATATCGATAGCCTTGTTGAGTTTCTTAAGAAAGGAGGACGATTGGAATCTGATCATAGCGACATAGGATTGACAGAGAGGACAAAAAGGCGCAGGATAGAAATTAATCTGGGTGTTTCAGAAGAAGCAAGATTTGCGGATGAAGAGAAGTCCAGGTCTTCTGGAATGAGATTCGGGTACTTACACAAGTGCTTAGGGCTTAATGATGATGAAATTGATCGTTTACGCAACGAAAACACTCAAAACTTATTGTTGAACTATAAGAAACTTCATTTGGTACTTGATCTAGACCACACCCTGCTCAATTCAACTTTCCTAGATAGTATGTCACCAGATGAAGAATATTTGAAGACTCAAACCCAATATGATCATTCCCTGCAACATGTTCACATTGTGGATACTCCCAGCATGCGACTGATGATAAAGTTCAGACCATATATTAGGACATTTTTAATGGAAGCCAGTCAAATGTTTGAGCTGTCCATATACACAATGGGTAATCGAGACTATGCTCTTGAAATGGCTAAGCTGCTTGATCCTGGAAATCAAATCTTTGGTGGTAGAGTCATATCACGTAGTGATAGCACAGAAACAGATCGAAAGGGTCTAGATGTCCTGCTTGCCCGAGATTCTGCTGTTTTAATCCTTGATGATACAAAAGATGTGTGGACAAATATCAACCAGGACAATGTAATAGTAATGCCCAGATACCATTTTTTTAAATCTAGTTGTCAACAATATGGCATCAGTAATAGTAAGCCTTATTCCGAGTTGAAGACCGACGAATGTGATCGGTATGGAGGAGCTTATCTTGCAAATGTACTTCAACTTCTTAGACATATCCACACCATCTTCTTTAATGAAGTCGAGATAGAGGGGTGGGATCTTATCGACAGAGATGTGAGGCTCGTCTTAAAAATCCTTCAGAAGGAAGTCTTGAAGTGTTGTAAAATTGTTTTCAGCCATGTATTCCATTCAAATGTCAAGGCTGATACTCAACCTTTGTGGAAGATGGCGGAGCAGTTGGGAGCTACTTGTTCGACACAAGTTGATCCATCAGTCACACAGGTGGTTGCAGCAGATGCTCGAACACAGAAATCTTGTTGGGCAGTAAAAGCAGGCAAATTTTTGGTGAATCCACAGTGGATCCATACTGCAAATTTTATGTGGCAAAAGCAACCTGAAGAAAATTTCCCCTGCCATTACCAACATTAA

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

415

Amino Acids

47.92

Weight (kDa)

6.15

Isoelectric Point (pI)

45.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	102 - 249	8.4e-24	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: OG0000221)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G58003 AT5G58003 AT5G58003
fragaria_vesca	FvH4_1g01060 FvH4_1g01060 FvH4_1g01060 FvH4_1g01060 FvH4_2g05941 FvH4_7g02340 FvH4_7g02631 FvH4_7g02801 FvH4_7g07841 FvH4_7g08260
malus_domestica	MD09G1131300.v1.1
prunus_persica	Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1
pyrus_communis	pycom09g05350
rosa_chinensis	RchiOBHm_Chr1g0324741 RchiOBHm_Chr2g0085821 RchiOBHm_Chr2g0147611 RchiOBHm_Chr4g0392421 RchiOBHm_Chr6g0254001 RchiOBHm_Chr6g0256111 RchiOBHm_Chr6g0256201 RchiOBHm_Chr6g0256301 RchiOBHm_Chr6g0257451 RchiOBHm_Chr6g0267911 RchiOBHm_Chr6g0276921 RchiOBHm_Chr7g0234511 RchiOBHm_Chr7g0234521 RchiOBHm_Chr7g0234531 RchiOBHm_Chr7g0234711 RchiOBHm_Chr7g0234721 RchiOBHm_Chr7g0234801 RchiOBHm_Chr7g0234841 RchiOBHm_Chr7g0234851
rosa_laevigata	RLG00000001210 RLG00000001218 RLG00000013348 RLG00000013351 RLG00000013354 RLG00000013969 RLG00000014699 RLG00000014794 RLG00000014949 RLG00000015721 RLG00000030176 RLG00000030180 RLG00000030183
rosa_multiflora	Rmu_sc0000434.1_g000006 Rmu_sc0001716.1_g000020 Rmu_sc0001800.1_g000011 Rmu_sc0001913.1_g000023 Rmu_sc0003301.1_g000015 Rmu_sc0003882.1_g000010 Rmu_sc0005080.1_g000013 Rmu_sc0006724.1_g000007 Rmu_sc0006759.1_g000001 Rmu_sc0006859.1_g000001 Rmu_sc0007217.1_g000009 Rmu_sc0010500.1_g000001 Rmu_sc0015353.1_g000005 Rmu_sc0017253.1_g000006 Rmu_sc0021133.1_g000001 Rmu_sc0033202.1_g000001
rosa_roxburghii	Rroxscaffold_2G00155020 Rroxscaffold_4G00325270 Rroxscaffold_7G00200340 Rroxscaffold_7G00211310
rosa_rugosa	Rorug01G0046400 Rorug01G0463600 Rorug05G0571900 Rorug05G0572300 Rorug06G0034600 Rorug07G0285100 Rorug07G0285400 Rorug07G0285500 Rorug07G0285600
rosa_samantha	Rh1AG063200 Rh1AG063800 Rh1DG069200 Rh1DG070400 Rh2AG012600 Rh2BG013300 Rh2DG015000 Rh4AG042600 Rh4BG037500 Rh4CG045400 Rh4CG045600 Rh6AG065400 Rh6AG082000 Rh6AG082100 Rh6AG089900 Rh6AG156900 Rh6AG157000 Rh6AG157200 Rh6AG214900 Rh6AG215000 Rh6AG215200 Rh6AG291000 Rh6BG058300 Rh6BG074200 Rh6BG074300 Rh6BG081300 Rh6BG158100 Rh6BG158400 Rh6BG158700 Rh6BG219800 Rh6CG058400 Rh6CG071100 Rh6CG078000 Rh6CG157400 Rh6CG158100 Rh6CG222400 Rh6DG055200 Rh6DG068500 Rh6DG073700 Rh6DG143300 Rh6DG143700 Rh6DG144100 Rh6DG212600 Rh7AG440200 Rh7AG440300 Rh7BG413100 Rh7CG461400 Rh7CG461500 Rh7CG461900 Rh7CG462000 Rh7DG429900
rosa_wichuraiana	Rw1G005350 Rw2G001120 Rw4G003330 Rw6G005760 Rw6G007140 Rw6G007840 Rw6G013630 Rw6G013660 Rw6G018800 Rw6G025060 Rw7G036540 Rw7G036580 Rw7G036600

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	170, 1049
AclWI	GGATC	5 cut(s)	563, 924, 1079, 1174, 1187
AcsI	RAATTY	3 cut(s)	1157, 1192, 1222
AcuI	CTGAAG	2 cut(s)	941, 1236
AdeI	CACNNNGTG	2 cut(s)	427, 611
AfaI	GTAC	3 cut(s)	212, 312, 855
AfiI	CCNNNNNNNGG	1 cut(s)	961
AflII	CTTAAG	1 cut(s)	59
AflIII	ACRYGT	1 cut(s)	415
AgsI	TTSAA	8 cut(s)	289, 342, 382, 551, 808, 860, 973, 1011
AjnI	CCWGG	3 cut(s)	185, 571, 714
AjuI	GAANNNNNNNTTGG	2 cut(s)	290, 322
AleI	CACNNNNGTG	1 cut(s)	1100
AluBI	AGCT	4 cut(s)	511, 562, 839, 1064
AluI	AGCT	4 cut(s)	511, 562, 839, 1064
Alw26I	GTCTC	2 cut(s)	22, 531
AlwI	GGATC	5 cut(s)	563, 924, 1079, 1174, 1187
Ama87I	CYCGRG	1 cut(s)	657
ApeKI	GCWGC	2 cut(s)	562, 1109
ApoI	RAATTY	3 cut(s)	1157, 1192, 1222
AseI	ATTAAT	1 cut(s)	138
AspLEI	GCGC	1 cut(s)	126
AsuHPI	GGTGA	2 cut(s)	354, 1177
AvaI	CYCGRG	1 cut(s)	657
BamHI	GGATCC	1 cut(s)	1179
BarI	GAAGNNNNNNTAC	2 cut(s)	846, 878
BbsI	GAAGAC	3 cut(s)	183, 389, 815
BbvI	GCAGC	2 cut(s)	549, 1121
BccI	CCATC	3 cut(s)	890, 1039, 1096
BciT130I	CCWGG	3 cut(s)	187, 573, 716
BciVI	GTATCC	1 cut(s)	424
BclI	TGATCA	2 cut(s)	85, 400
BcoDI	GTCTC	2 cut(s)	22, 531
BfaI	CTAG	4 cut(s)	320, 350, 641, 759
BfmI	CTRYAG	1 cut(s)	12
BfrI	CTTAAG	1 cut(s)	59
BfuI	GTATCC	1 cut(s)	424
BisI	GCNGC	2 cut(s)	563, 1110
BlpI	GCTNAGC	1 cut(s)	558
BlsI	GCNGC	2 cut(s)	564, 1111
Bme1390I	CCNGG	3 cut(s)	187, 573, 716
BmeT110I	CYCGRG	1 cut(s)	657
BmiI	GGNNCC	1 cut(s)	1181
BmrFI	CCNGG	3 cut(s)	187, 573, 716
BmsI	GCATC	2 cut(s)	786, 1105
BpiI	GAAGAC	3 cut(s)	183, 389, 815
Bpu10I	CCTNAGC	1 cut(s)	226
Bpu1102I	GCTNAGC	1 cut(s)	558
Bsa29I	ATCGAT	1 cut(s)	39
BsaAI	YACGTR	1 cut(s)	608
BsaBI	GATNNNNATC	1 cut(s)	79
BsaXI	ACNNNNNCTCC	1 cut(s)	34
Bsc4I	CCNNNNNNNGG	1 cut(s)	961
Bse1I	ACTGG	1 cut(s)	495
Bse8I	GATNNNNATC	1 cut(s)	79
BseBI	CCWGG	3 cut(s)	187, 573, 716
BseCI	ATCGAT	1 cut(s)	39
BseGI	GGATG	1 cut(s)	178
BseJI	GATNNNNATC	1 cut(s)	79
BseLI	CCNNNNNNNGG	1 cut(s)	961
BseNI	ACTGG	1 cut(s)	495
BseRI	GAGGAG	1 cut(s)	849
BseXI	GCAGC	2 cut(s)	549, 1121
BseYI	CCCAGC	1 cut(s)	437
BshVI	ATCGAT	1 cut(s)	39
BsiHKCI	CYCGRG	1 cut(s)	657
BslI	CCNNNNNNNGG	1 cut(s)	961
BsmAI	GTCTC	2 cut(s)	22, 531
BsoBI	CYCGRG	1 cut(s)	657
Bsp1720I	GCTNAGC	1 cut(s)	558
BspACI	CCGC	2 cut(s)	170, 1049
BspDI	ATCGAT	1 cut(s)	39
BspLI	GGNNCC	1 cut(s)	1181
BspPI	GGATC	5 cut(s)	563, 924, 1079, 1174, 1187
BspTI	CTTAAG	1 cut(s)	59
BsrI	ACTGG	1 cut(s)	495
Bst2UI	CCWGG	3 cut(s)	187, 573, 716
Bst4CI	ACNGT	3 cut(s)	7, 16, 1176
Bst6I	CTCTTC	1 cut(s)	171
BstAFI	CTTAAG	1 cut(s)	59
BstAPI	GCANNNNNTGC	2 cut(s)	167, 1115
BstBAI	YACGTR	1 cut(s)	608
BstC8I	GCNNGC	3 cut(s)	443, 654, 1153
BstDEI	CTNAG	3 cut(s)	226, 558, 866
BstENI	CCTNNNNNAGG	1 cut(s)	959
BstF5I	GGATG	1 cut(s)	178
BstHHI	GCGC	1 cut(s)	126
BstMAI	GTCTC	2 cut(s)	22, 531
BstMWI	GCNNNNNNNGC	4 cut(s)	167, 845, 1115, 1148
BstNI	CCWGG	3 cut(s)	187, 573, 716
BstNSI	RCATGY	2 cut(s)	419, 445
BstSCI	CCNGG	3 cut(s)	185, 571, 714
BstSFI	CTRYAG	1 cut(s)	12
BstV1I	GCAGC	2 cut(s)	549, 1121
BstV2I	GAAGAC	3 cut(s)	183, 389, 815
BstX2I	RGATCY	2 cut(s)	916, 1179
BstYI	RGATCY	2 cut(s)	916, 1179
Bsu15I	ATCGAT	1 cut(s)	39
BsuI	GTATCC	1 cut(s)	424
BsuTUI	ATCGAT	1 cut(s)	39
BtsCI	GGATG	1 cut(s)	178
BtsIMutI	CAGTG	1 cut(s)	1181
Cac8I	GCNNGC	3 cut(s)	443, 654, 1153
CfoI	GCGC	1 cut(s)	126
ClaI	ATCGAT	1 cut(s)	39
Csp6I	GTAC	3 cut(s)	211, 311, 854
CspCI	CAANNNNNGTGG	2 cut(s)	1019, 1054
CviAII	CATG	3 cut(s)	416, 442, 998
CviQI	GTAC	3 cut(s)	211, 311, 854
DdeI	CTNAG	3 cut(s)	226, 558, 866
DraI	TTTAAA	1 cut(s)	754
DraIII	CACNNNGTG	2 cut(s)	427, 611
Eam1104I	CTCTTC	1 cut(s)	171
EarI	CTCTTC	1 cut(s)	171
EciI	GGCGGA	1 cut(s)	1064
Eco57I	CTGAAG	2 cut(s)	941, 1236
Eco88I	CYCGRG	1 cut(s)	657
EcoNI	CCTNNNNNAGG	1 cut(s)	959
EcoRII	CCWGG	3 cut(s)	185, 571, 714
FaeI	CATG	3 cut(s)	419, 445, 1001
FalI	AAGNNNNNCTT	2 cut(s)	953, 985
FatI	CATG	3 cut(s)	415, 441, 997
FbaI	TGATCA	2 cut(s)	85, 400
Fnu4HI	GCNGC	2 cut(s)	563, 1110
FokI	GGATG	1 cut(s)	185
Fsp4HI	GCNGC	2 cut(s)	563, 1110
FspBI	CTAG	4 cut(s)	320, 350, 641, 759
GlaI	GCGC	1 cut(s)	125
GluI	GCNGC	2 cut(s)	563, 1110
GsaI	CCCAGC	1 cut(s)	441
HhaI	GCGC	1 cut(s)	126
Hin1II	CATG	3 cut(s)	419, 445, 1001
Hin6I	GCGC	1 cut(s)	124
HinP1I	GCGC	1 cut(s)	124
HincII	GTYRAC	1 cut(s)	767
HindII	GTYRAC	1 cut(s)	767
HinfI	GANTC	6 cut(s)	80, 204, 385, 597, 662, 1168
HphI	GGTGA	2 cut(s)	354, 1177
Hpy166II	GTNNAC	4 cut(s)	257, 421, 702, 767
Hpy188I	TCNGA	5 cut(s)	85, 154, 464, 802, 960
Hpy188III	TCNNGA	7 cut(s)	195, 320, 536, 548, 641, 901, 970
Hpy8I	GTNNAC	4 cut(s)	257, 421, 702, 767
Hpy99I	CGWCG	1 cut(s)	818
HpyAV	CCTTC	2 cut(s)	955, 965
HpyCH4III	ACNGT	3 cut(s)	7, 16, 1176
HpyCH4IV	ACGT	1 cut(s)	607
HpyCH4V	TGCA	4 cut(s)	412, 848, 1109, 1190
HpyF10VI	GCNNNNNNNGC	4 cut(s)	167, 845, 1115, 1148
HpyF3I	CTNAG	3 cut(s)	226, 558, 866
HpySE526I	ACGT	1 cut(s)	607
Hsp92II	CATG	3 cut(s)	419, 445, 1001
HspAI	GCGC	1 cut(s)	124
Ksp22I	TGATCA	2 cut(s)	85, 400
LmnI	GCTCC	3 cut(s)	836, 1051, 1061
Lsp1109I	GCAGC	2 cut(s)	549, 1121
LweI	GCATC	2 cut(s)	786, 1105
MaeI	CTAG	4 cut(s)	320, 350, 641, 759
MaeII	ACGT	1 cut(s)	607
MaeIII	GTNAC	2 cut(s)	360, 1093
MboII	GAAGA	9 cut(s)	167, 183, 188, 383, 394, 820, 877, 1054, 1229
MflI	RGATCY	2 cut(s)	916, 1179
MluCI	AATT	8 cut(s)	24, 135, 246, 337, 984, 1157, 1192, 1222
MlyI	GAGTC	2 cut(s)	379, 606
MnlI	CCTC	5 cut(s)	62, 105, 827, 901, 930
MseI	TTAA	9 cut(s)	60, 138, 234, 485, 674, 753, 891, 947, 1246
MslI	CAYNNNNRTG	2 cut(s)	1011, 1100
MspCI	CTTAAG	1 cut(s)	59
MspR9I	CCNGG	3 cut(s)	187, 573, 716
MvaI	CCWGG	3 cut(s)	187, 573, 716
MwoI	GCNNNNNNNGC	4 cut(s)	167, 845, 1115, 1148
NlaIII	CATG	3 cut(s)	419, 445, 1001
NlaIV	GGNNCC	1 cut(s)	1181
NmuCI	GTSAC	2 cut(s)	360, 1093
NspI	RCATGY	2 cut(s)	419, 445
OliI	CACNNNNGTG	1 cut(s)	1100
PaeI	GCATGC	1 cut(s)	445
PciI	ACATGT	1 cut(s)	415
PfeI	GAWTC	4 cut(s)	80, 204, 662, 1168
PfoI	TCCNGGA	1 cut(s)	571
PkrI	GCNGC	2 cut(s)	564, 1111
PleI	GAGTC	2 cut(s)	379, 605
PpsI	GAGTC	2 cut(s)	379, 605
Ppu21I	YACGTR	1 cut(s)	608
PscI	ACATGT	1 cut(s)	415
PshBI	ATTAAT	1 cut(s)	138
Psp6I	CCWGG	3 cut(s)	185, 571, 714
PspFI	CCCAGC	1 cut(s)	437
PspGI	CCWGG	3 cut(s)	185, 571, 714
PspN4I	GGNNCC	1 cut(s)	1181
PsuI	RGATCY	2 cut(s)	916, 1179
RsaI	GTAC	3 cut(s)	212, 312, 855
RsaNI	GTAC	3 cut(s)	211, 311, 854
RseI	CAYNNNNRTG	2 cut(s)	1011, 1100
SaqAI	TTAA	9 cut(s)	60, 138, 234, 485, 674, 753, 891, 947, 1246
SatI	GCNGC	2 cut(s)	563, 1110
SchI	GAGTC	2 cut(s)	379, 606
ScrFI	CCNGG	3 cut(s)	187, 573, 716
SetI	ASST	9 cut(s)	191, 513, 564, 610, 841, 1036, 1066, 1104, 1216
SfaNI	GCATC	2 cut(s)	786, 1105
SfcI	CTRYAG	1 cut(s)	12
SmiMI	CAYNNNNRTG	2 cut(s)	1011, 1100
SmlI	CTYRAG	1 cut(s)	59
SmoI	CTYRAG	1 cut(s)	59
SphI	GCATGC	1 cut(s)	445
Sse9I	AATT	8 cut(s)	24, 135, 246, 337, 984, 1157, 1192, 1222
SsiI	CCGC	2 cut(s)	170, 1049
SspI	AATATT	1 cut(s)	377
SspMI	CTAG	4 cut(s)	320, 350, 641, 759
StyD4I	CCNGG	3 cut(s)	185, 571, 714
TaaI	ACNGT	3 cut(s)	7, 16, 1176
TaiI	ACGT	1 cut(s)	610
TaqI	TCGA	7 cut(s)	39, 535, 631, 900, 924, 1073, 1120
TaqII	GACCGA	1 cut(s)	827
TasI	AATT	8 cut(s)	24, 135, 246, 337, 984, 1157, 1192, 1222
TatI	WGTACW	1 cut(s)	853
TfiI	GAWTC	4 cut(s)	80, 204, 662, 1168
Tru1I	TTAA	9 cut(s)	60, 138, 234, 485, 674, 753, 891, 947, 1246
Tru9I	TTAA	9 cut(s)	60, 138, 234, 485, 674, 753, 891, 947, 1246
TscAI	CASTG	1 cut(s)	1181
TseFI	GTSAC	2 cut(s)	360, 1093
TseI	GCWGC	2 cut(s)	562, 1109
Tsp45I	GTSAC	2 cut(s)	360, 1093
TspDTI	ATGAA	5 cut(s)	189, 258, 293, 384, 909
TspRI	CASTG	1 cut(s)	1181
Vha464I	CTTAAG	1 cut(s)	59
VspI	ATTAAT	1 cut(s)	138
XagI	CCTNNNNNAGG	1 cut(s)	959
XapI	RAATTY	3 cut(s)	1157, 1192, 1222
XbaI	TCTAGA	2 cut(s)	319, 640
XceI	RCATGY	2 cut(s)	419, 445
XcmI	CCANNNNNNNNNTGG	1 cut(s)	523
XspI	CTAG	4 cut(s)	320, 350, 641, 759

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