Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0000759

Physical Location & Seq

Genomic Coordinates Reverse (-)

24557267 .. 24562248

Gene Structure 4982 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG137700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1119 bp

ATGGATCATGTGCTAGTTCGATTTGGTCGTTTAAGCTTTGTTTTTGAGAAAGATCTACACCTTCAGATTCTTCAACCAGAAGCAATCAAGAGCCAATACAAGAGTTTTTCTGCAAGAAAGATTAGTTTGCTATCTGGACCATTGGGGCTTGGTTGGCGTGATCGTAGCAAGTTTTTTCTCTTGCCCGTGAATACTCTCTACTTGTCATTGTTTGCAAGTAGTCCACTTAGCATTGCTCAAATTCTGCTTGATCAAACACGACATGATGAAATACGTATTTTAGGATGCCAAACTCTTTTCGACTTTGTGAATAATCAGATGCGCATGAAATTGTTGGACAATGAGATTGTTCATCTCTCTTTTCCTTTCTCAAATTCCAGCTACAAAACCCAGTGGATTGTTCGTTTCTCGACGAAAAGATCAGGAGAGATTGGTCGGTTTCCAATGGAATGGGCAAAATGTGTTGTTCCTCTTGTGAATTCTGGTAAGGTTAAAGTTCTTGGGCGGTTTATGGTTGCGCCCAAGTTCCTATCTATGATGCAAGATATCATTATTGTCCGTAAGGAGGGCTTCTTCAATCTATGTAAACATTTTCACAGGGGAGGCAACCACAAAATTATTCCAACTGCAATGCTGATGGCAAGAGGAGGAATCCTAGCAGATGCAATGGGACTTCGGAAGACCGTGATGACAATTGCTCTAATACTTGCAAGACCAGGTAAAAGAGGCTCTAGTGATATCGAAATTACAAAGAAGAGGAAGATAGATTCAGATACAACTGCCCCATTGAAACCAAAGGGAGGCACTCTTGTTGATGAGCTTGAAACTCATTCAGAGCCCGAAAGTAGTTCCATTTTTGTTCACTATGGTGGACACAGAACTGCTAACCCCAAGGCAATCTTGGTACATGATGTGGTCATGACAACATATGGTGTCTTGGCTGCAGCTTACAAAAGTGATGGGGAGGACAGCCTTTTCCACCAGGTTGACTGGTATAGGGTGGTGCTTGATGAAGCTCATACCATTAAATCTTCAAGGACCCAAGGTGCTCGATCAGGCTTTTTTCACCTTGTCATCGCATTGCAGATGGTGTTTGACTGGAACTCTTATTCAGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HIRAN Helicase_C SNF2_N zf-C3HC4 zf-C3HC4_3

Protein Analysis

372

Amino Acids

42.08

Weight (kDa)

9.66

Isoelectric Point (pI)

33.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HIRAN	PF08797	109 - 185	1.2e-09	HIRAN domain
SNF2-rel_dom	PF00176	213 - 348	2.1e-14	SNF2-related domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000759)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43530
fragaria_vesca	FvH4_4g03130 FvH4_4g03131 FvH4_4g03132 FvH4_4g03180 FvH4_4g03180 FvH4_4g03180
malus_domestica	MD16G1213200.v1.1
prunus_persica	Prupe.1G034800_v2.0.a1
pyrus_communis	pycom16g17900 pycom16g17910
rosa_chinensis	RchiOBHm_Chr4g0391421 RchiOBHm_Chr4g0391471 RchiOBHm_Chr4g0391481 RchiOBHm_Chr4g0391501 RchiOBHm_Chr4g0391631 RchiOBHm_Chr4g0391741 RchiOBHm_Chr4g0391801
rosa_laevigata	RLG00000009859 RLG00000009860 RLG00000009864 RLG00000009865 RLG00000009866 RLG00000028882 RLG00000034555
rosa_multiflora	Rmu_sc0000383.1_g000032 Rmu_sc0001174.1_g000001 Rmu_sc0001174.1_g000027 Rmu_sc0001174.1_g000030 Rmu_sc0004862.1_g000001 Rmu_sc0004862.1_g000022 Rmu_sc0007466.1_g000001 Rmu_sc0021280.1_g000001 Rmu_sc0023741.1_g000005
rosa_roxburghii	Rroxscaffold_5G00337130 Rroxscaffold_5G00337140 Rroxscaffold_5G00337170 Rroxscaffold_7G00197540
rosa_rugosa	Rorug03G0335900 Rorug03G0336000 Rorug03G0336100 Rorug03G0336400
rosa_samantha	Rh4AG037500 Rh4AG037600 Rh4AG037700 Rh4AG038300 Rh4AG038400 Rh4AG038500 Rh4AG038800 Rh4BG031800 Rh4BG032300 Rh4BG032500 Rh4BG032600 Rh4BG033000 Rh4BG137700 Rh4CG040500 Rh4CG040700 Rh4CG040800 Rh4CG041400 Rh4CG269500 Rh4DG035000 Rh4DG035100 Rh4DG035200 Rh4DG036200 Rh6DG188300
rosa_wichuraiana	Rw4G002920 Rw4G002930 Rw4G002970 Rw4G003010 Rw5G048340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	323
AciI	CCGC	1 cut(s)	505
AclWI	GGATC	1 cut(s)	12
AcsI	RAATTY	3 cut(s)	240, 373, 478
AcuI	CTGAAG	1 cut(s)	47
AfaI	GTAC	1 cut(s)	906
AfiI	CCNNNNNNNGG	2 cut(s)	565, 800
AgsI	TTSAA	5 cut(s)	74, 577, 790, 824, 1035
AjnI	CCWGG	2 cut(s)	715, 981
AleI	CACNNNNGTG	1 cut(s)	867
AluBI	AGCT	5 cut(s)	36, 381, 820, 947, 1016
AluI	AGCT	5 cut(s)	36, 381, 820, 947, 1016
Alw21I	GWGCWC	1 cut(s)	1051
AlwI	GGATC	1 cut(s)	12
ApeKI	GCWGC	2 cut(s)	941, 944
ApoI	RAATTY	3 cut(s)	240, 373, 478
AspLEI	GCGC	2 cut(s)	324, 520
AspS9I	GGNCC	2 cut(s)	137, 1038
AsuHPI	GGTGA	1 cut(s)	1058
AvaII	GGWCC	2 cut(s)	137, 1038
BanII	GRGCYC	1 cut(s)	840
BbsI	GAAGAC	1 cut(s)	686
Bbv12I	GWGCWC	1 cut(s)	1051
BbvI	GCAGC	2 cut(s)	928, 956
BccI	CCATC	3 cut(s)	631, 953, 1081
BciT130I	CCWGG	2 cut(s)	717, 983
BclI	TGATCA	1 cut(s)	250
BfaI	CTAG	3 cut(s)	14, 656, 732
BfmI	CTRYAG	1 cut(s)	942
BglII	AGATCT	1 cut(s)	52
BisI	GCNGC	2 cut(s)	942, 945
BlsI	GCNGC	2 cut(s)	943, 946
Bme1390I	CCNGG	2 cut(s)	717, 983
Bme18I	GGWCC	2 cut(s)	137, 1038
BmgT120I	GGNCC	2 cut(s)	137, 1038
BmiI	GGNNCC	1 cut(s)	1040
BmrFI	CCNGG	2 cut(s)	717, 983
BmrI	ACTGGG	1 cut(s)	385
BmsI	GCATC	4 cut(s)	275, 309, 528, 652
BmuI	ACTGGG	1 cut(s)	385
BpiI	GAAGAC	1 cut(s)	686
BsaAI	YACGTR	1 cut(s)	275
BsaJI	CCNNGG	2 cut(s)	891, 1042
Bsc4I	CCNNNNNNNGG	2 cut(s)	565, 800
Bse1I	ACTGG	3 cut(s)	391, 995, 1103
Bse3DI	GCAATG	4 cut(s)	231, 636, 672, 1079
BseBI	CCWGG	2 cut(s)	717, 983
BseDI	CCNNGG	2 cut(s)	891, 1042
BseGI	GGATG	1 cut(s)	290
BseLI	CCNNNNNNNGG	2 cut(s)	565, 800
BseMI	GCAATG	4 cut(s)	231, 636, 672, 1079
BseNI	ACTGG	3 cut(s)	391, 995, 1103
BseRI	GAGGAG	1 cut(s)	660
BseXI	GCAGC	2 cut(s)	928, 956
BsiHKAI	GWGCWC	1 cut(s)	1051
BslFI	GGGAC	1 cut(s)	684
BslI	CCNNNNNNNGG	2 cut(s)	565, 800
BsmFI	GGGAC	1 cut(s)	684
Bsp1286I	GDGCHC	2 cut(s)	840, 1051
Bsp143I	GATC	6 cut(s)	4, 52, 160, 250, 419, 1052
BspACI	CCGC	1 cut(s)	505
BspHI	TCATGA	1 cut(s)	918
BspLI	GGNNCC	1 cut(s)	1040
BspMAI	CTGCAG	1 cut(s)	946
BspPI	GGATC	1 cut(s)	12
BsrDI	GCAATG	4 cut(s)	231, 636, 672, 1079
BsrI	ACTGG	3 cut(s)	391, 995, 1103
BssECI	CCNNGG	2 cut(s)	891, 1042
BssMI	GATC	6 cut(s)	4, 52, 160, 250, 419, 1052
BssT1I	CCWWGG	2 cut(s)	891, 1042
Bst2UI	CCWGG	2 cut(s)	717, 983
Bst4CI	ACNGT	1 cut(s)	685
Bst6I	CTCTTC	1 cut(s)	749
BstBAI	YACGTR	1 cut(s)	275
BstDEI	CTNAG	1 cut(s)	227
BstF5I	GGATG	1 cut(s)	290
BstHHI	GCGC	2 cut(s)	324, 520
BstKTI	GATC	6 cut(s)	7, 55, 163, 253, 422, 1055
BstMBI	GATC	6 cut(s)	4, 52, 160, 250, 419, 1052
BstMWI	GCNNNNNNNGC	1 cut(s)	154
BstNI	CCWGG	2 cut(s)	717, 983
BstSCI	CCNGG	2 cut(s)	715, 981
BstSFI	CTRYAG	1 cut(s)	942
BstSNI	TACGTA	1 cut(s)	275
BstV1I	GCAGC	2 cut(s)	928, 956
BstV2I	GAAGAC	1 cut(s)	686
BstX2I	RGATCY	1 cut(s)	52
BstXI	CCANNNNNNTGG	1 cut(s)	450
BstYI	RGATCY	1 cut(s)	52
BtgZI	GCGATG	1 cut(s)	1060
BtsCI	GGATG	1 cut(s)	290
BtsIMutI	CAGTG	1 cut(s)	398
CciI	TCATGA	1 cut(s)	918
CfoI	GCGC	2 cut(s)	324, 520
Cfr13I	GGNCC	2 cut(s)	137, 1038
CsiI	ACCWGGT	2 cut(s)	715, 981
Csp6I	GTAC	1 cut(s)	905
CviAII	CATG	5 cut(s)	8, 263, 325, 908, 919
CviQI	GTAC	1 cut(s)	905
DdeI	CTNAG	1 cut(s)	227
DpnI	GATC	6 cut(s)	6, 54, 162, 252, 421, 1054
DpnII	GATC	6 cut(s)	4, 52, 160, 250, 419, 1052
Eam1104I	CTCTTC	1 cut(s)	749
EarI	CTCTTC	1 cut(s)	749
Eco105I	TACGTA	1 cut(s)	275
Eco130I	CCWWGG	2 cut(s)	891, 1042
Eco24I	GRGCYC	1 cut(s)	840
Eco32I	GATATC	2 cut(s)	547, 739
Eco47I	GGWCC	2 cut(s)	137, 1038
Eco57I	CTGAAG	1 cut(s)	47
EcoO109I	RGGNCCY	1 cut(s)	1038
EcoRI	GAATTC	1 cut(s)	478
EcoRII	CCWGG	2 cut(s)	715, 981
EcoRV	GATATC	2 cut(s)	547, 739
EcoT14I	CCWWGG	2 cut(s)	891, 1042
EcoT38I	GRGCYC	1 cut(s)	840
ErhI	CCWWGG	2 cut(s)	891, 1042
FaeI	CATG	5 cut(s)	11, 266, 328, 911, 922
FalI	AAGNNNNNCTT	4 cut(s)	554, 586, 884, 916
FaqI	GGGAC	1 cut(s)	684
FatI	CATG	5 cut(s)	7, 262, 324, 907, 918
FauNDI	CATATG	1 cut(s)	928
FbaI	TGATCA	1 cut(s)	250
Fnu4HI	GCNGC	2 cut(s)	942, 945
FokI	GGATG	1 cut(s)	297
FriOI	GRGCYC	1 cut(s)	840
Fsp4HI	GCNGC	2 cut(s)	942, 945
FspAI	RTGCGCAY	1 cut(s)	323
FspBI	CTAG	3 cut(s)	14, 656, 732
FspI	TGCGCA	1 cut(s)	323
GlaI	GCGC	2 cut(s)	323, 519
GluI	GCNGC	2 cut(s)	942, 945
HhaI	GCGC	2 cut(s)	324, 520
Hin1II	CATG	5 cut(s)	11, 266, 328, 911, 922
Hin6I	GCGC	2 cut(s)	322, 518
HinP1I	GCGC	2 cut(s)	322, 518
HincII	GTYRAC	1 cut(s)	988
HindII	GTYRAC	1 cut(s)	988
HindIII	AAGCTT	1 cut(s)	34
HinfI	GANTC	3 cut(s)	67, 651, 767
HphI	GGTGA	1 cut(s)	1058
Hpy166II	GTNNAC	5 cut(s)	224, 587, 862, 872, 988
Hpy188I	TCNGA	6 cut(s)	66, 318, 678, 772, 835, 1114
Hpy188III	TCNNGA	5 cut(s)	88, 135, 409, 423, 919
Hpy8I	GTNNAC	5 cut(s)	224, 587, 862, 872, 988
Hpy99I	CGWCG	1 cut(s)	415
HpyAV	CCTTC	1 cut(s)	71
HpyCH4III	ACNGT	1 cut(s)	685
HpyCH4IV	ACGT	1 cut(s)	274
HpyCH4V	TGCA	8 cut(s)	113, 215, 541, 629, 665, 710, 944, 1084
HpyF10VI	GCNNNNNNNGC	1 cut(s)	154
HpyF3I	CTNAG	1 cut(s)	227
HpySE526I	ACGT	1 cut(s)	274
Hsp92II	CATG	5 cut(s)	11, 266, 328, 911, 922
HspAI	GCGC	2 cut(s)	322, 518
Ksp22I	TGATCA	1 cut(s)	250
Kzo9I	GATC	6 cut(s)	4, 52, 160, 250, 419, 1052
Lsp1109I	GCAGC	2 cut(s)	928, 956
LweI	GCATC	4 cut(s)	275, 309, 528, 652
MabI	ACCWGGT	2 cut(s)	715, 981
MaeI	CTAG	3 cut(s)	14, 656, 732
MaeII	ACGT	1 cut(s)	274
MalI	GATC	6 cut(s)	6, 54, 162, 252, 421, 1054
MboI	GATC	6 cut(s)	4, 52, 160, 250, 419, 1052
MboII	GAAGA	6 cut(s)	62, 565, 691, 766, 772, 1023
MfeI	CAATTG	1 cut(s)	693
MflI	RGATCY	1 cut(s)	52
MhlI	GDGCHC	2 cut(s)	840, 1051
MluCI	AATT	7 cut(s)	240, 329, 373, 478, 615, 693, 744
MmeI	TCCRAC	2 cut(s)	315, 647
MnlI	CCTC	9 cut(s)	480, 559, 596, 638, 641, 719, 750, 794, 958
MseI	TTAA	3 cut(s)	32, 492, 1026
MslI	CAYNNNNRTG	1 cut(s)	867
MspR9I	CCNGG	2 cut(s)	717, 983
MunI	CAATTG	1 cut(s)	693
MvaI	CCWGG	2 cut(s)	717, 983
MwoI	GCNNNNNNNGC	1 cut(s)	154
NdeI	CATATG	1 cut(s)	928
NdeII	GATC	6 cut(s)	4, 52, 160, 250, 419, 1052
NlaIII	CATG	5 cut(s)	11, 266, 328, 911, 922
NlaIV	GGNNCC	1 cut(s)	1040
NsbI	TGCGCA	1 cut(s)	323
OliI	CACNNNNGTG	1 cut(s)	867
PagI	TCATGA	1 cut(s)	918
PcsI	WCGNNNNNNNCGW	1 cut(s)	25
PfeI	GAWTC	3 cut(s)	67, 651, 767
PkrI	GCNGC	2 cut(s)	943, 946
Ppu21I	YACGTR	1 cut(s)	275
PpuMI	RGGWCCY	1 cut(s)	1038
Psp5II	RGGWCCY	1 cut(s)	1038
Psp6I	CCWGG	2 cut(s)	715, 981
PspGI	CCWGG	2 cut(s)	715, 981
PspN4I	GGNNCC	1 cut(s)	1040
PspPI	GGNCC	2 cut(s)	137, 1038
PspPPI	RGGWCCY	1 cut(s)	1038
PstI	CTGCAG	1 cut(s)	946
PsuI	RGATCY	1 cut(s)	52
RsaI	GTAC	1 cut(s)	906
RsaNI	GTAC	1 cut(s)	905
RseI	CAYNNNNRTG	1 cut(s)	867
SaqAI	TTAA	3 cut(s)	32, 492, 1026
SatI	GCNGC	2 cut(s)	942, 945
Sau3AI	GATC	6 cut(s)	4, 52, 160, 250, 419, 1052
Sau96I	GGNCC	2 cut(s)	137, 1038
ScrFI	CCNGG	2 cut(s)	717, 983
SduI	GDGCHC	2 cut(s)	840, 1051
SexAI	ACCWGGT	2 cut(s)	715, 981
SfaNI	GCATC	4 cut(s)	275, 309, 528, 652
SfcI	CTRYAG	1 cut(s)	942
SinI	GGWCC	2 cut(s)	137, 1038
SmiMI	CAYNNNNRTG	1 cut(s)	867
SnaBI	TACGTA	1 cut(s)	275
Sse9I	AATT	7 cut(s)	240, 329, 373, 478, 615, 693, 744
SsiI	CCGC	1 cut(s)	505
SspMI	CTAG	3 cut(s)	14, 656, 732
StyD4I	CCNGG	2 cut(s)	715, 981
StyI	CCWWGG	2 cut(s)	891, 1042
TaaI	ACNGT	1 cut(s)	685
TaiI	ACGT	1 cut(s)	277
TaqI	TCGA	5 cut(s)	19, 300, 410, 741, 1051
TasI	AATT	7 cut(s)	240, 329, 373, 478, 615, 693, 744
TfiI	GAWTC	3 cut(s)	67, 651, 767
Tru1I	TTAA	3 cut(s)	32, 492, 1026
Tru9I	TTAA	3 cut(s)	32, 492, 1026
TscAI	CASTG	1 cut(s)	398
TseI	GCWGC	2 cut(s)	941, 944
TspDTI	ATGAA	4 cut(s)	282, 341, 341, 1026
TspGWI	ACGGA	1 cut(s)	548
TspRI	CASTG	1 cut(s)	398
VpaK11BI	GGWCC	2 cut(s)	137, 1038
XapI	RAATTY	3 cut(s)	240, 373, 478
XcmI	CCANNNNNNNNNTGG	1 cut(s)	898
XspI	CTAG	3 cut(s)	14, 656, 732

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