Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0002228

Physical Location & Seq

Genomic Coordinates Forward (+)

87416301 .. 87418920

Gene Structure 2620 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG515500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1023 bp

ATGGTGGATCTCAGCCCCAGGTCTGAAATCTTAAGTCCGGCAAGGGTCTTTACTGATTGTGCTTATTCAGCAGATGCAAGTACAAGGCGACCTACTGTGGCGGATGATAGTGATGCCACAAAGATGGGTTCAAGGCAGATTTTTGTTAAACAATATCTTGTGAAGTGGAAGGGACTATCATATCTACATTGCACATGGATTCTTGAGAAAGAATTTTTCAAAGCATTCAAGACATACCCGCGTCTAAAGCAGAAGGTTAACAATTTCAATCGTCAAAGGTCTTCCATTAATAACACAGAGGAGGAATTTGTTGCCATTCAACCCGAATGGACAACTGTTGACCGGATCCTTGCTTGCAGGGGCGATGATGAGAAGCAATATCATGTAAAGTGGCAAGAACTTCCTTACGATGAATGTTATTGGGAAGTGGAGGCTGATATCTCTACATTTCAGCCAGAAATAGAGAAATTCCATAGAATCCAGTCTAGATCTCACAAATTGTCTGGTAAGCAGAAGAGCAGTCTTAAAGATGCTCTCGAATCAAAAAAGAAGCAGAAAGAGTTTCAACAGTTTGAACACAGTCCTGAATTTCTTTCTGGAGGTACACTGCATCCCTATCAGCTTGAAGGTTTGAACTTTTTACGCTTCTCCTGGTCCAAACGAACTCCTGTGATACTTGCAGACGAGATGGGACTTGGCAAAACTATACAGAGTATAGCTTTTTTAGCATCTCTGTATGAAGAGAAAGTCTATCCACATCTAGTGGTGAGGAGAGGAGCAGACAAAGCGGAGATTTACAGTCTTGCTTTCTCTTCCACTGCCCAATGGCTAGCTGTCTCAAGTGACAAGGGTACTGTCCGTGTTTTCAGCGTAAAGGTTGACTCAGGATCTTTGGGGAATGATGGATCATCCAATACATCAGAAATTAGTGGTTCTAATTCATCAGGCATTTCATCTCTGTCTTACATCAAAGATAATATATTTTGGTATCTTGCACTTGAAGTTCTGATTTCTCAATTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006338 GO:0006355 GO:0006996 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0008283 GO:0009719 GO:0009725 GO:0009733 GO:0009735 GO:0009736 GO:0009739 GO:0009755 GO:0009787 GO:0009788 GO:0009889 GO:0009890 GO:0009892 GO:0009966 GO:0009968 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0010646 GO:0010648 GO:0016043 GO:0019219 GO:0019222 GO:0022622 GO:0023051 GO:0023052 GO:0023057 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045892 GO:0045934 GO:0048364 GO:0048519 GO:0048523 GO:0048580 GO:0048583 GO:0048585 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051239 GO:0051252 GO:0051253 GO:0051276 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071310 GO:0071368 GO:0071495 GO:0071840 GO:0080090 GO:0097159 GO:0099402 GO:1901363 GO:1901419 GO:1901420 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:1905957 GO:1905958 GO:2000023 GO:2000026 GO:2000069 GO:2000112 GO:2000113 GO:2000280 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko05165 ko05203 map05165 map05203

Pfam Domains

Protein Families

CHDCT2 Chromo DUF1086 DUF1087 Helicase_C PHD SNF2_N

Protein Analysis

340

Amino Acids

38.87

Weight (kDa)

7.65

Isoelectric Point (pI)

49.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Chromo	PF00385	46 - 71	1.7e-07	Chromo (CHRromatin Organisation MOdifier) domain
Chromo	PF00385	112 - 159	1.8e-13	Chromo (CHRromatin Organisation MOdifier) domain
SNF2-rel_dom	PF00176	206 - 250	2.9e-10	SNF2-related 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: OG0002228)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G25170 AT2G25170 AT2G25170 AT2G25170 AT4G31900 AT4G31900 AT4G31900
fragaria_vesca	FvH4_2g40920
malus_domestica	MD08G1058800.v1.1 MD15G1037700.v1.1
prunus_persica	Prupe.1G391600_v2.0.a1
pyrus_communis	pycom08g04860 pycom08g04870 pycom15g03490
rosa_chinensis	RchiOBHm_Chr3g0455421 RchiOBHm_Chr6g0299661
rosa_laevigata	RLG00000011399 RLG00000025364
rosa_multiflora	Rmu_co8019708.1_g000001 Rmu_co8099568.1_g000001 Rmu_sc0022216.1_g000002 Rmu_sc0024261.1_g000001 Rmu_sc0024262.1_g000001
rosa_roxburghii	Rroxscaffold_6G00424300 Rroxscaffold_7G00168470
rosa_rugosa	Rorug03G0007200 Rorug03G0007300 Rorug03G0007400 Rorug04G0013500 Rorug06G0291400
rosa_samantha	Rh3AG066700 Rh3BG069100 Rh3CG067500 Rh3DG069000 Rh5AG515500 Rh6AG402100 Rh6BG410600 Rh6CG416300 Rh6CG416400 Rh6DG403500
rosa_wichuraiana	Rw2G021110 Rw3G005270 Rw6G035200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	241
AciI	CCGC	3 cut(s)	101, 239, 788
AclWI	GGATC	5 cut(s)	15, 340, 353, 895, 913
AcsI	RAATTY	4 cut(s)	212, 305, 467, 587
AfaI	GTAC	3 cut(s)	82, 604, 853
AflII	CTTAAG	1 cut(s)	31
AjnI	CCWGG	2 cut(s)	17, 650
AluBI	AGCT	3 cut(s)	622, 719, 833
AluI	AGCT	3 cut(s)	622, 719, 833
Alw26I	GTCTC	1 cut(s)	841
AlwI	GGATC	5 cut(s)	15, 340, 353, 895, 913
ApoI	RAATTY	4 cut(s)	212, 305, 467, 587
AseI	ATTAAT	1 cut(s)	288
AspS9I	GGNCC	1 cut(s)	654
AsuHPI	GGTGA	1 cut(s)	778
AsuNHI	GCTAGC	1 cut(s)	829
AvaII	GGWCC	1 cut(s)	654
BamHI	GGATCC	1 cut(s)	345
BbsI	GAAGAC	1 cut(s)	273
BccI	CCATC	3 cut(s)	118, 682, 896
BciT130I	CCWGG	2 cut(s)	19, 652
BcoDI	GTCTC	1 cut(s)	841
BfaI	CTAG	3 cut(s)	486, 761, 830
BfrI	CTTAAG	1 cut(s)	31
BglII	AGATCT	1 cut(s)	488
Bme1390I	CCNGG	2 cut(s)	19, 652
Bme18I	GGWCC	1 cut(s)	654
BmgT120I	GGNCC	1 cut(s)	654
BmiI	GGNNCC	1 cut(s)	347
BmrFI	CCNGG	2 cut(s)	19, 652
BmsI	GCATC	5 cut(s)	64, 103, 520, 619, 737
BmtI	GCTAGC	1 cut(s)	833
BpiI	GAAGAC	1 cut(s)	273
BpmI	CTGGAG	1 cut(s)	618
BpuEI	CTTGAG	2 cut(s)	224, 823
BsaJI	CCNNGG	1 cut(s)	17
BsaWI	WCCGGW	1 cut(s)	342
Bse1I	ACTGG	1 cut(s)	481
Bse3DI	GCAATG	1 cut(s)	187
BseBI	CCWGG	2 cut(s)	19, 652
BseDI	CCNNGG	1 cut(s)	17
BseGI	GGATG	3 cut(s)	109, 610, 908
BseMI	GCAATG	1 cut(s)	187
BseMII	CTCAG	2 cut(s)	25, 897
BseNI	ACTGG	1 cut(s)	481
BseRI	GAGGAG	3 cut(s)	314, 784, 789
Bsh1236I	CGCG	1 cut(s)	241
BsiSI	CCGG	2 cut(s)	38, 343
BslFI	GGGAC	2 cut(s)	186, 705
BsmAI	GTCTC	1 cut(s)	841
BsmFI	GGGAC	2 cut(s)	186, 705
BsmI	GAATGC	1 cut(s)	224
Bsp143I	GATC	5 cut(s)	7, 345, 488, 887, 905
BspACI	CCGC	3 cut(s)	101, 239, 788
BspCNI	CTCAG	2 cut(s)	24, 896
BspFNI	CGCG	1 cut(s)	241
BspLI	GGNNCC	1 cut(s)	347
BspOI	GCTAGC	1 cut(s)	833
BspPI	GGATC	5 cut(s)	15, 340, 353, 895, 913
BspQI	GCTCTTC	1 cut(s)	509
BspTI	CTTAAG	1 cut(s)	31
BsrDI	GCAATG	1 cut(s)	187
BsrI	ACTGG	1 cut(s)	481
BssECI	CCNNGG	1 cut(s)	17
BssMI	GATC	5 cut(s)	7, 345, 488, 887, 905
Bst2UI	CCWGG	2 cut(s)	19, 652
Bst4CI	ACNGT	6 cut(s)	97, 337, 570, 581, 800, 856
Bst6I	CTCTTC	3 cut(s)	509, 735, 817
BstAFI	CTTAAG	1 cut(s)	31
BstC8I	GCNNGC	2 cut(s)	355, 831
BstDEI	CTNAG	2 cut(s)	11, 883
BstF5I	GGATG	3 cut(s)	109, 610, 908
BstFNI	CGCG	1 cut(s)	241
BstKTI	GATC	5 cut(s)	10, 348, 491, 890, 908
BstMAI	GTCTC	1 cut(s)	841
BstMBI	GATC	5 cut(s)	7, 345, 488, 887, 905
BstMWI	GCNNNNNNNGC	4 cut(s)	68, 247, 725, 785
BstNI	CCWGG	2 cut(s)	19, 652
BstSCI	CCNGG	2 cut(s)	17, 650
BstUI	CGCG	1 cut(s)	241
BstV2I	GAAGAC	1 cut(s)	273
BstX2I	RGATCY	4 cut(s)	7, 345, 488, 887
BstXI	CCANNNNNNTGG	1 cut(s)	124
BstYI	RGATCY	4 cut(s)	7, 345, 488, 887
BtgZI	GCGATG	1 cut(s)	378
BtsCI	GGATG	3 cut(s)	109, 610, 908
BtsI	GCAGTG	2 cut(s)	605, 816
BtsIMutI	CAGTG	2 cut(s)	605, 816
Cac8I	GCNNGC	2 cut(s)	355, 831
Cfr13I	GGNCC	1 cut(s)	654
CseI	GACGC	1 cut(s)	230
Csp6I	GTAC	3 cut(s)	81, 603, 852
CviAII	CATG	2 cut(s)	195, 383
CviJI	RGCY	7 cut(s)	15, 434, 454, 622, 719, 829, 833
CviKI_1	RGCY	7 cut(s)	15, 434, 454, 622, 719, 829, 833
CviQI	GTAC	3 cut(s)	81, 603, 852
DdeI	CTNAG	2 cut(s)	11, 883
DpnI	GATC	5 cut(s)	9, 347, 490, 889, 907
DpnII	GATC	5 cut(s)	7, 345, 488, 887, 905
Eam1104I	CTCTTC	3 cut(s)	509, 735, 817
EarI	CTCTTC	3 cut(s)	509, 735, 817
EciI	GGCGGA	1 cut(s)	116
Eco32I	GATATC	1 cut(s)	439
Eco47I	GGWCC	1 cut(s)	654
EcoRII	CCWGG	2 cut(s)	17, 650
EcoRV	GATATC	1 cut(s)	439
FaeI	CATG	2 cut(s)	198, 386
FaqI	GGGAC	2 cut(s)	186, 705
FatI	CATG	2 cut(s)	194, 382
FauI	CCCGC	1 cut(s)	246
FokI	GGATG	3 cut(s)	116, 597, 895
FspBI	CTAG	3 cut(s)	486, 761, 830
GsuI	CTGGAG	1 cut(s)	618
HapII	CCGG	2 cut(s)	38, 343
HgaI	GACGC	1 cut(s)	230
Hin1II	CATG	2 cut(s)	198, 386
HincII	GTYRAC	3 cut(s)	259, 340, 880
HindII	GTYRAC	3 cut(s)	259, 340, 880
HinfI	GANTC	4 cut(s)	199, 477, 539, 881
HpaI	GTTAAC	1 cut(s)	259
HpaII	CCGG	2 cut(s)	38, 343
HphI	GGTGA	1 cut(s)	778
Hpy166II	GTNNAC	4 cut(s)	259, 340, 605, 880
Hpy188I	TCNGA	3 cut(s)	25, 922, 1008
Hpy188III	TCNNGA	7 cut(s)	203, 229, 486, 536, 584, 597, 885
Hpy8I	GTNNAC	4 cut(s)	259, 340, 605, 880
HpyAV	CCTTC	3 cut(s)	163, 247, 620
HpyCH4III	ACNGT	6 cut(s)	97, 337, 570, 581, 800, 856
HpyCH4V	TGCA	6 cut(s)	77, 192, 357, 610, 680, 995
HpyF10VI	GCNNNNNNNGC	4 cut(s)	68, 247, 725, 785
HpyF3I	CTNAG	2 cut(s)	11, 883
Hsp92II	CATG	2 cut(s)	198, 386
KspAI	GTTAAC	1 cut(s)	259
Kzo9I	GATC	5 cut(s)	7, 345, 488, 887, 905
LguI	GCTCTTC	1 cut(s)	509
LmnI	GCTCC	1 cut(s)	776
LweI	GCATC	5 cut(s)	64, 103, 520, 619, 737
MaeI	CTAG	3 cut(s)	486, 761, 830
MaeIII	GTNAC	1 cut(s)	842
MalI	GATC	5 cut(s)	9, 347, 490, 889, 907
MboI	GATC	5 cut(s)	7, 345, 488, 887, 905
MboII	GAAGA	4 cut(s)	273, 526, 752, 804
MflI	RGATCY	4 cut(s)	7, 345, 488, 887
MluCI	AATT	9 cut(s)	212, 262, 305, 467, 497, 587, 924, 937, 1016
MlyI	GAGTC	1 cut(s)	875
MnlI	CCTC	6 cut(s)	292, 295, 424, 593, 762, 767
MseI	TTAA	5 cut(s)	32, 147, 258, 288, 525
MslI	CAYNNNNRTG	1 cut(s)	122
MspCI	CTTAAG	1 cut(s)	31
MspI	CCGG	2 cut(s)	38, 343
MspR9I	CCNGG	2 cut(s)	19, 652
Mva1269I	GAATGC	1 cut(s)	224
MvaI	CCWGG	2 cut(s)	19, 652
MvnI	CGCG	1 cut(s)	241
MwoI	GCNNNNNNNGC	4 cut(s)	68, 247, 725, 785
NdeII	GATC	5 cut(s)	7, 345, 488, 887, 905
NheI	GCTAGC	1 cut(s)	829
NlaIII	CATG	2 cut(s)	198, 386
NlaIV	GGNNCC	1 cut(s)	347
NmuCI	GTSAC	1 cut(s)	842
PciSI	GCTCTTC	1 cut(s)	509
PctI	GAATGC	1 cut(s)	224
PfeI	GAWTC	3 cut(s)	199, 477, 539
PleI	GAGTC	1 cut(s)	875
PpsI	GAGTC	1 cut(s)	875
PshBI	ATTAAT	1 cut(s)	288
Psp6I	CCWGG	2 cut(s)	17, 650
PspGI	CCWGG	2 cut(s)	17, 650
PspN4I	GGNNCC	1 cut(s)	347
PspPI	GGNCC	1 cut(s)	654
PsuI	RGATCY	4 cut(s)	7, 345, 488, 887
RsaI	GTAC	3 cut(s)	82, 604, 853
RsaNI	GTAC	3 cut(s)	81, 603, 852
RseI	CAYNNNNRTG	1 cut(s)	122
SapI	GCTCTTC	1 cut(s)	509
SaqAI	TTAA	5 cut(s)	32, 147, 258, 288, 525
Sau3AI	GATC	5 cut(s)	7, 345, 488, 887, 905
Sau96I	GGNCC	1 cut(s)	654
SchI	GAGTC	1 cut(s)	875
ScrFI	CCNGG	2 cut(s)	19, 652
SfaNI	GCATC	5 cut(s)	64, 103, 520, 619, 737
SinI	GGWCC	1 cut(s)	654
SmiMI	CAYNNNNRTG	1 cut(s)	122
SmlI	CTYRAG	3 cut(s)	31, 203, 838
SmoI	CTYRAG	3 cut(s)	31, 203, 838
Sse9I	AATT	9 cut(s)	212, 262, 305, 467, 497, 587, 924, 937, 1016
SsiI	CCGC	3 cut(s)	101, 239, 788
SspMI	CTAG	3 cut(s)	486, 761, 830
StyD4I	CCNGG	2 cut(s)	17, 650
TaaI	ACNGT	6 cut(s)	97, 337, 570, 581, 800, 856
TaqI	TCGA	1 cut(s)	537
TasI	AATT	9 cut(s)	212, 262, 305, 467, 497, 587, 924, 937, 1016
TatI	WGTACW	1 cut(s)	80
TfiI	GAWTC	3 cut(s)	199, 477, 539
Tru1I	TTAA	5 cut(s)	32, 147, 258, 288, 525
Tru9I	TTAA	5 cut(s)	32, 147, 258, 288, 525
TscAI	CASTG	2 cut(s)	612, 823
TseFI	GTSAC	1 cut(s)	842
Tsp45I	GTSAC	1 cut(s)	842
TspDTI	ATGAA	4 cut(s)	426, 753, 930, 942
TspGWI	ACGGA	1 cut(s)	848
TspRI	CASTG	2 cut(s)	612, 823
Vha464I	CTTAAG	1 cut(s)	31
VpaK11BI	GGWCC	1 cut(s)	654
VspI	ATTAAT	1 cut(s)	288
XapI	RAATTY	4 cut(s)	212, 305, 467, 587
XbaI	TCTAGA	1 cut(s)	485
XspI	CTAG	3 cut(s)	486, 761, 830

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