Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000625

Physical Location & Seq

Genomic Coordinates Forward (+)

88011343 .. 88014398

Gene Structure 3056 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG517600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1038 bp

ATGGTTGACGGGTTTCAGAGGTGTGCGCTGGAAACCCGGCTCCGGATTCCATTGATATATGGGATTGATGCTGTTCATGGGAACAATGGAGTCTTTGGTGCGCCTGGTGCCACTATATTTCCTCACAGTGTTGGTCTTGGGGCTACCAGAGATGCGGATTTGGCTCAAAGGATTGGTGAGGCAACTGCTCTTGAAGTCAGGGCCAGCGGGATTCACTACACTTTTGCTCCCTGTGTAGCTGGAATTGTGATTTCTGACTGGGATGGTATTGAAATACTCAGTGAGCCTCAAGGGTCAAACTATTGTTTCTGCATTTTATCTGCTGTCAATGCTGGAATTGACATGTTTATGGTGCCTTTCAGATTTGAAAATTTTGTGGATGATTTAGTGAATCTGGTGGAACATGGGGAGATACCAATGTCCAGGATAGATGATGCTGTTGAGAGAATACTGAGAGTGAAGTTTGTTGCTGGTCTTTTTGAACGTCCCTTTTCTGATAGATCTTTGCTGGACAGAGTTGGTTGTAAGGCACAACCATCTTGGAAGCTATCAAGAAGGCAGTTGGAGAGGAAACAGATAATTTATGAGCAACTGCCATCGACAGATACCCTAGCACGTAAAGATACCTCTGTTGCAGTTGTTGCTGGTGGTGAAGGTTCATATGCCGAATGTAAGGGCGACAACTTGGAGCTTGTGATTCCTTTTAATGGACCCGATGTAATAAGCTCAGTTGCTGACAGAATCCCCACATTGGTGATTCTGATATCTGGAAGACCCTTAACTGTAGAGCCAAGTCTCTTGGAAAAGATGGATGCTCTTGTTGCTGCTTGGTTGCCTGGTAGTGAAGGAGAGGGAATTGCAGATGTTATCTTTGGAGATTATAACTTCGAGGGCAAGCTACCGGTGACATGGTTTAAAAGTGTTGAACAGCTCCCATTGGATGTCGGAAGCAACTCATCCGACCCTTTATATCCTCTTGGGTTTGGATTGACATGCAATACGGAAAAAGTTGTACGCCAAACAGATTTTGATAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000272 GO:0000323 GO:0003674 GO:0003824 GO:0004553 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005764 GO:0005773 GO:0005886 GO:0005975 GO:0005976 GO:0008150 GO:0008152 GO:0008422 GO:0009056 GO:0009057 GO:0009251 GO:0015926 GO:0016020 GO:0016052 GO:0016787 GO:0016798 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044042 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0071704 GO:0071944 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko00460 ko00500 ko00940 ko01100 ko01110 map00460 map00500 map00940 map01100 map01110

Pfam Domains

Protein Families

Glyco_hydro_3 Glyco_hydro_3_C

Protein Analysis

345

Amino Acids

37.64

Weight (kDa)

4.72

Isoelectric Point (pI)

29.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Glyco_hydro_3	PF00933	9 - 79	4.9e-15	Glycosyl hydrolase family 3 N terminal domain
Glyco_hydro_3	PF00933	81 - 153	1.2e-09	Glycosyl hydrolase family 3 N terminal domain
Glyco_hydro_3_C	PF01915	179 - 331	6.7e-27	Glycosyl hydrolase family 3 C-terminal 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: OG0000625)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G47010 AT3G47040 AT3G47050
fragaria_vesca	FvH4_1g28352 FvH4_3g26960 FvH4_7g05180
malus_domestica	MD02G1089300.v1.1 MD02G1259900.v1.1 MD14G1004400.v1.1
prunus_persica	Prupe.2G065700_v2.0.a1 Prupe.2G092700_v2.0.a1 Prupe.7G007100_v2.0.a1 Prupe.7G007700_v2.0.a1
pyrus_communis	pycom02g22100 pycom07g04670 pycom11g06820 pycom11g15190 pycom14g00200 pycom14g00230
rosa_chinensis	RchiOBHm_Chr5g0049431 RchiOBHm_Chr5g0049441 RchiOBHm_Chr5g0079371 RchiOBHm_Chr6g0274311
rosa_laevigata	RLG00000006403 RLG00000008403 RLG00000028847 RLG00000034618
rosa_multiflora	Rmu_co8385859.1_g000001 Rmu_sc0000376.1_g000001 Rmu_sc0001307.1_g000017 Rmu_sc0001307.1_g000019 Rmu_sc0001900.1_g000031 Rmu_sc0002912.1_g000028 Rmu_sc0006084.1_g000018 Rmu_sc0006888.1_g000063 Rmu_sc0014052.1_g000002 Rmu_sc0014052.1_g000004 Rmu_sc0022931.1_g000004
rosa_roxburghii	Rroxscaffold_1G00003570 Rroxscaffold_1G00032240 Rroxscaffold_1G00032250 Rroxscaffold_2G00103090 Rroxscaffold_4G00289090 Rroxscaffold_5G00336970
rosa_rugosa	Rorug03G0185900 Rorug04G0020500 Rorug04G0020600 Rorug04G0020600 Rorug04G0020700.1 Rorug04G0020800.1 Rorug04G0020900 Rorug04G0020900 Rorug04G0020900 Rorug05G0248500 Rorug05G0248500 Rorug05G0248500 Rorug05G0248600 Rorug05G0465800
rosa_samantha	Rh3CG363400 Rh4DG330500 Rh4DG330600 Rh5AG245600 Rh5AG516800 Rh5AG517600 Rh5AG519000 Rh5AG519500 Rh5BG335900 Rh5BG336000 Rh5BG540700 Rh5BG542700 Rh5DG348200 Rh5DG348300 Rh5DG551900 Rh6BG185500 Rh7DG265300
rosa_wichuraiana	Rw1G018240 Rw4G028270 Rw5G030690

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	882
AccB1I	GGYRCC	2 cut(s)	107, 352
AccIII	TCCGGA	1 cut(s)	42
AciI	CCGC	2 cut(s)	155, 207
AcsI	RAATTY	1 cut(s)	370
AfaI	GTAC	1 cut(s)	1014
AfiI	CCNNNNNNNGG	3 cut(s)	42, 707, 751
AflIII	ACRYGT	1 cut(s)	342
AgeI	ACCGGT	1 cut(s)	901
AgsI	TTSAA	5 cut(s)	194, 272, 368, 482, 926
AjnI	CCWGG	3 cut(s)	103, 422, 835
AleI	CACNNNNGTG	1 cut(s)	752
AluBI	AGCT	6 cut(s)	239, 547, 691, 726, 898, 931
AluI	AGCT	6 cut(s)	239, 547, 691, 726, 898, 931
Alw26I	GTCTC	1 cut(s)	800
AlwNI	CAGNNNCTG	1 cut(s)	734
Aor13HI	TCCGGA	1 cut(s)	42
AoxI	GGCC	1 cut(s)	201
ApeKI	GCWGC	1 cut(s)	824
ApoI	RAATTY	1 cut(s)	370
AsiGI	ACCGGT	1 cut(s)	901
AspLEI	GCGC	2 cut(s)	28, 103
AspS9I	GGNCC	2 cut(s)	201, 710
AsuC2I	CCSGG	1 cut(s)	37
AsuHPI	GGTGA	4 cut(s)	188, 662, 766, 916
AvaII	GGWCC	1 cut(s)	710
BaeI	ACNNNNGTAYC	4 cut(s)	404, 437, 615, 648
BanI	GGYRCC	2 cut(s)	107, 352
BbsI	GAAGAC	1 cut(s)	778
BbvI	GCAGC	1 cut(s)	811
BccI	CCATC	4 cut(s)	257, 544, 604, 802
BciT130I	CCWGG	3 cut(s)	105, 424, 837
BcnI	CCSGG	1 cut(s)	37
BcoDI	GTCTC	1 cut(s)	800
BfaI	CTAG	1 cut(s)	611
BfmI	CTRYAG	1 cut(s)	783
BglII	AGATCT	1 cut(s)	500
BisI	GCNGC	1 cut(s)	825
BlsI	GCNGC	1 cut(s)	826
Bme1390I	CCNGG	4 cut(s)	37, 105, 424, 837
Bme18I	GGWCC	1 cut(s)	710
BmgT120I	GGNCC	2 cut(s)	201, 710
BmiI	GGNNCC	4 cut(s)	41, 109, 354, 712
BmrFI	CCNGG	4 cut(s)	37, 105, 424, 837
BmrI	ACTGGG	1 cut(s)	268
BmsI	GCATC	4 cut(s)	58, 142, 424, 802
BmuI	ACTGGG	1 cut(s)	268
BpiI	GAAGAC	1 cut(s)	778
BpuEI	CTTGAG	1 cut(s)	273
BpuMI	CCSGG	1 cut(s)	37
BsaAI	YACGTR	1 cut(s)	617
BsaWI	WCCGGW	2 cut(s)	42, 901
BsaXI	ACNNNNNCTCC	2 cut(s)	211, 241
Bsc4I	CCNNNNNNNGG	3 cut(s)	42, 707, 751
Bse118I	RCCGGY	1 cut(s)	901
Bse1I	ACTGG	1 cut(s)	263
BseAI	TCCGGA	1 cut(s)	42
BseBI	CCWGG	3 cut(s)	105, 424, 837
BseGI	GGATG	5 cut(s)	268, 385, 817, 946, 956
BseLI	CCNNNNNNNGG	3 cut(s)	42, 707, 751
BseMII	CTCAG	3 cut(s)	292, 443, 741
BseNI	ACTGG	1 cut(s)	263
BseXI	GCAGC	1 cut(s)	811
BshFI	GGCC	1 cut(s)	203
BshNI	GGYRCC	2 cut(s)	107, 352
BshTI	ACCGGT	1 cut(s)	901
BsiSI	CCGG	3 cut(s)	37, 43, 902
BslFI	GGGAC	1 cut(s)	471
BslI	CCNNNNNNNGG	3 cut(s)	42, 707, 751
BsmAI	GTCTC	1 cut(s)	800
BsmFI	GGGAC	1 cut(s)	471
BsnI	GGCC	1 cut(s)	203
Bsp13I	TCCGGA	1 cut(s)	42
Bsp143I	GATC	1 cut(s)	500
BspACI	CCGC	2 cut(s)	155, 207
BspANI	GGCC	1 cut(s)	203
BspCNI	CTCAG	3 cut(s)	291, 444, 740
BspEI	TCCGGA	1 cut(s)	42
BspLI	GGNNCC	4 cut(s)	41, 109, 354, 712
BspT107I	GGYRCC	2 cut(s)	107, 352
BsrFI	RCCGGY	1 cut(s)	901
BsrI	ACTGG	1 cut(s)	263
BssAI	RCCGGY	1 cut(s)	901
BssMI	GATC	1 cut(s)	500
Bst2UI	CCWGG	3 cut(s)	105, 424, 837
Bst4CI	ACNGT	2 cut(s)	128, 784
BstAPI	GCANNNNNTGC	1 cut(s)	641
BstBAI	YACGTR	1 cut(s)	617
BstC8I	GCNNGC	2 cut(s)	205, 896
BstDEI	CTNAG	3 cut(s)	278, 452, 727
BstF5I	GGATG	5 cut(s)	268, 385, 817, 946, 956
BstHHI	GCGC	2 cut(s)	28, 103
BstKTI	GATC	1 cut(s)	503
BstMAI	GTCTC	1 cut(s)	800
BstMBI	GATC	1 cut(s)	500
BstMWI	GCNNNNNNNGC	5 cut(s)	107, 161, 329, 641, 821
BstNI	CCWGG	3 cut(s)	105, 424, 837
BstNSI	RCATGY	2 cut(s)	346, 996
BstSCI	CCNGG	4 cut(s)	35, 103, 422, 835
BstSFI	CTRYAG	1 cut(s)	783
BstV1I	GCAGC	1 cut(s)	811
BstV2I	GAAGAC	1 cut(s)	778
BstX2I	RGATCY	1 cut(s)	500
BstYI	RGATCY	1 cut(s)	500
BsuRI	GGCC	1 cut(s)	203
BtsCI	GGATG	5 cut(s)	268, 385, 817, 946, 956
BtsIMutI	CAGTG	2 cut(s)	133, 286
Cac8I	GCNNGC	2 cut(s)	205, 896
CaiI	CAGNNNCTG	1 cut(s)	734
CfoI	GCGC	2 cut(s)	28, 103
Cfr10I	RCCGGY	1 cut(s)	901
Cfr13I	GGNCC	2 cut(s)	201, 710
Csp6I	GTAC	1 cut(s)	1013
CspAI	ACCGGT	1 cut(s)	901
CviAII	CATG	5 cut(s)	77, 343, 404, 909, 993
CviQI	GTAC	1 cut(s)	1013
DdeI	CTNAG	3 cut(s)	278, 452, 727
DpnI	GATC	1 cut(s)	502
DpnII	GATC	1 cut(s)	500
DraI	TTTAAA	1 cut(s)	916
Eco32I	GATATC	1 cut(s)	765
Eco47I	GGWCC	1 cut(s)	710
EcoRII	CCWGG	3 cut(s)	103, 422, 835
EcoRV	GATATC	1 cut(s)	765
FaeI	CATG	5 cut(s)	80, 346, 407, 912, 996
FaqI	GGGAC	1 cut(s)	471
FatI	CATG	5 cut(s)	76, 342, 403, 908, 992
FauI	CCCGC	1 cut(s)	200
FauNDI	CATATG	1 cut(s)	661
Fnu4HI	GCNGC	1 cut(s)	825
FokI	GGATG	5 cut(s)	275, 392, 824, 943, 953
Fsp4HI	GCNGC	1 cut(s)	825
FspBI	CTAG	1 cut(s)	611
GlaI	GCGC	2 cut(s)	27, 102
GluI	GCNGC	1 cut(s)	825
HaeIII	GGCC	1 cut(s)	203
HapII	CCGG	3 cut(s)	37, 43, 902
HhaI	GCGC	2 cut(s)	28, 103
Hin1II	CATG	5 cut(s)	80, 346, 407, 912, 996
Hin6I	GCGC	2 cut(s)	26, 101
HinP1I	GCGC	2 cut(s)	26, 101
HincII	GTYRAC	1 cut(s)	7
HindII	GTYRAC	1 cut(s)	7
HinfI	GANTC	7 cut(s)	46, 90, 211, 391, 697, 741, 757
HpaII	CCGG	3 cut(s)	37, 43, 902
HphI	GGTGA	4 cut(s)	188, 662, 766, 916
Hpy166II	GTNNAC	1 cut(s)	7
Hpy188I	TCNGA	7 cut(s)	18, 256, 362, 496, 762, 947, 961
Hpy188III	TCNNGA	4 cut(s)	43, 191, 552, 768
Hpy8I	GTNNAC	1 cut(s)	7
HpyAV	CCTTC	3 cut(s)	549, 647, 839
HpyCH4III	ACNGT	2 cut(s)	128, 784
HpyCH4IV	ACGT	2 cut(s)	484, 616
HpyCH4V	TGCA	4 cut(s)	312, 635, 860, 996
HpyF10VI	GCNNNNNNNGC	5 cut(s)	107, 161, 329, 641, 821
HpyF3I	CTNAG	3 cut(s)	278, 452, 727
HpySE526I	ACGT	2 cut(s)	484, 616
Hsp92II	CATG	5 cut(s)	80, 346, 407, 912, 996
HspAI	GCGC	2 cut(s)	26, 101
Kpn2I	TCCGGA	1 cut(s)	42
Kzo9I	GATC	1 cut(s)	500
LmnI	GCTCC	4 cut(s)	45, 232, 688, 936
Lsp1109I	GCAGC	1 cut(s)	811
LweI	GCATC	4 cut(s)	58, 142, 424, 802
MaeI	CTAG	1 cut(s)	611
MaeII	ACGT	2 cut(s)	484, 616
MaeIII	GTNAC	1 cut(s)	904
MalI	GATC	1 cut(s)	502
MboI	GATC	1 cut(s)	500
MboII	GAAGA	1 cut(s)	783
MflI	RGATCY	1 cut(s)	500
MluCI	AATT	5 cut(s)	243, 336, 370, 579, 855
MlyI	GAGTC	1 cut(s)	99
MmeI	TCCRAC	3 cut(s)	543, 925, 984
MnlI	CCTC	9 cut(s)	12, 132, 172, 297, 561, 637, 844, 883, 984
MroI	TCCGGA	1 cut(s)	42
MseI	TTAA	3 cut(s)	705, 779, 915
MslI	CAYNNNNRTG	2 cut(s)	347, 752
MspA1I	CMGCKG	1 cut(s)	207
MspI	CCGG	3 cut(s)	37, 43, 902
MspR9I	CCNGG	4 cut(s)	37, 105, 424, 837
MvaI	CCWGG	3 cut(s)	105, 424, 837
MwoI	GCNNNNNNNGC	5 cut(s)	107, 161, 329, 641, 821
NciI	CCSGG	1 cut(s)	37
NdeI	CATATG	1 cut(s)	661
NdeII	GATC	1 cut(s)	500
NlaIII	CATG	5 cut(s)	80, 346, 407, 912, 996
NlaIV	GGNNCC	4 cut(s)	41, 109, 354, 712
NmuCI	GTSAC	1 cut(s)	904
NspI	RCATGY	2 cut(s)	346, 996
OliI	CACNNNNGTG	1 cut(s)	752
PciI	ACATGT	1 cut(s)	342
PfeI	GAWTC	6 cut(s)	46, 211, 391, 697, 741, 757
PfoI	TCCNGGA	1 cut(s)	422
PinAI	ACCGGT	1 cut(s)	901
PkrI	GCNGC	1 cut(s)	826
PleI	GAGTC	1 cut(s)	98
PpsI	GAGTC	1 cut(s)	98
Ppu21I	YACGTR	1 cut(s)	617
PscI	ACATGT	1 cut(s)	342
PsiI	TTATAA	1 cut(s)	882
Psp6I	CCWGG	3 cut(s)	103, 422, 835
PspGI	CCWGG	3 cut(s)	103, 422, 835
PspN4I	GGNNCC	4 cut(s)	41, 109, 354, 712
PspPI	GGNCC	2 cut(s)	201, 710
PstNI	CAGNNNCTG	1 cut(s)	734
PsuI	RGATCY	1 cut(s)	500
RsaI	GTAC	1 cut(s)	1014
RsaNI	GTAC	1 cut(s)	1013
RseI	CAYNNNNRTG	2 cut(s)	347, 752
SaqAI	TTAA	3 cut(s)	705, 779, 915
SatI	GCNGC	1 cut(s)	825
Sau3AI	GATC	1 cut(s)	500
Sau96I	GGNCC	2 cut(s)	201, 710
SchI	GAGTC	1 cut(s)	99
ScrFI	CCNGG	4 cut(s)	37, 105, 424, 837
SfaNI	GCATC	4 cut(s)	58, 142, 424, 802
SfcI	CTRYAG	1 cut(s)	783
SinI	GGWCC	1 cut(s)	710
SmiMI	CAYNNNNRTG	2 cut(s)	347, 752
SmlI	CTYRAG	1 cut(s)	288
SmoI	CTYRAG	1 cut(s)	288
Sse9I	AATT	5 cut(s)	243, 336, 370, 579, 855
SsiI	CCGC	2 cut(s)	155, 207
SspMI	CTAG	1 cut(s)	611
StyD4I	CCNGG	4 cut(s)	35, 103, 422, 835
TaaI	ACNGT	2 cut(s)	128, 784
TaiI	ACGT	2 cut(s)	487, 619
TaqI	TCGA	2 cut(s)	599, 888
TasI	AATT	5 cut(s)	243, 336, 370, 579, 855
TfiI	GAWTC	6 cut(s)	46, 211, 391, 697, 741, 757
Tru1I	TTAA	3 cut(s)	705, 779, 915
Tru9I	TTAA	3 cut(s)	705, 779, 915
TscAI	CASTG	2 cut(s)	133, 286
TseFI	GTSAC	1 cut(s)	904
TseI	GCWGC	1 cut(s)	824
Tsp45I	GTSAC	1 cut(s)	904
TspDTI	ATGAA	2 cut(s)	65, 648
TspGWI	ACGGA	1 cut(s)	1016
TspRI	CASTG	2 cut(s)	133, 286
VpaK11BI	GGWCC	1 cut(s)	710
XapI	RAATTY	1 cut(s)	370
XceI	RCATGY	2 cut(s)	346, 996
XspI	CTAG	1 cut(s)	611

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