Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0003151

Physical Location & Seq

Genomic Coordinates Forward (+)

16550132 .. 16555002

Gene Structure 4871 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG091600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1233 bp

ATGGCAATCATCTTATTCAATAGTCCGAGGTTAAAATGTCATTGTTTTTCTTTTCTTCACAACAGATATTGGGTAACAGAGATGCACGTGGATGGGTTCCGCTTTGATCTTGCTTCTATTATGACCAGGGGTACCAGTCTCTGGGATTCAACTAATGTATACGGGAGTCTGATAGAAGGTGACTTGTTGACAACTGGAACCCCTCTTGCTAGCCCTCCATTGATTGACATGATTAGTAATGACCCAATACTTCATGGAGTGAAGCTGATAGCTGAAGCTTGGGATGCAGGAGGCCTGTACCAACTTGGCATGTTTCCTCACTGGGGTATTTGGTCAGAATGGAACGGGAAGTATCGTGACACAGTGCGGCAGTTTATCAAGGGTACAGATGGCTTTTCTGGGGCTTTGGCCGAATGCCTTTGTGGGAGCCCTAATTTGTACCAGGAAGGGGGAGGGAGACCATGGAACAGTATCAATTTTATTTGTGCACATGATGGTTTTACTTTAGCTGATTTAGTAACCTATAACAACAAACATAACCTGGCAAACGGAGAAGACAACAATGACGGAGAGAATCATAATAATAGCTGGAACTGCGGACAGGAGGGAGAATTCACAAGCATTTCAGTGAAAAAACTGAGGAAGCGACAAATGCGGAATTTTTTTGTCTGCCTCATGGTTTCCCAAGGTGTTCCAATGATATATATGGGTGATGAGTATGGTCATACAAAAGGGGGGAACAACAACACATATTGCCATGATAATTATATTAATTACTTCCGGTGGGATAAGAAGGAAGAGTCTTCATCAGATTTTTTCAGATTTTGCTGTCTTATGACCAAATTCCGCCAGGAATGTGAGTCACTTGGTTTGAATGACTTCCCAACAGCAGAGAGACTGCAGTGGCATGGTCTTTCTCCTGGGCAGCCAAACTGGTCTAAAACAAGCCGCTTTGTGGCCTTTACTCTGGTTGACTCAGTGAAGAGAGAGATCTACATTGCCTTCAATGCCAGTCATTTACCCGTGAACATTTCACTGCCAGAGAGGCCTGGATACAGATGGGAACCCTTGGTAGACACTAGCAAGCCTTCACCCTTTGACTTCCTATCTAGTGACCTCCCACAAAGAGATATTGCAGTTAAACAGTATGCTCACTTTCTTGATGCCAATTTATACCCGATGCTAAGTTATTCTTCAATCATCCTATTGCTCGCTCCAGTCGAAGATGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000272 GO:0003674 GO:0003824 GO:0004133 GO:0004553 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005975 GO:0005976 GO:0005977 GO:0005982 GO:0005983 GO:0006073 GO:0006091 GO:0006112 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009058 GO:0009059 GO:0009251 GO:0009507 GO:0009536 GO:0009987 GO:0010021 GO:0010368 GO:0015980 GO:0016052 GO:0016787 GO:0016798 GO:0019156 GO:0032991 GO:0043033 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044042 GO:0044237 GO:0044238 GO:0044247 GO:0044248 GO:0044260 GO:0044262 GO:0044264 GO:0044275 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0055114 GO:0071704 GO:1901135 GO:1901137 GO:1901575 GO:1901576 GO:1902494 GO:2000896

KEGG Pathways

Metabolic & Signaling

ko00500 ko01100 ko01110 map00500 map01100 map01110

Pfam Domains

Protein Families

Alpha-amylase CBM_48

Protein Analysis

410

Amino Acids

46.66

Weight (kDa)

5.71

Isoelectric Point (pI)

44.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ISOA1-3_C	PF21156	301 - 402	2.4e-46	Isoamylase 1-3, C-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003151)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G39930 AT2G39930 AT2G39930
fragaria_vesca	FvH4_4g06440 FvH4_4g06440 FvH4_4g06440 FvH4_4g06440 FvH4_4g06440 FvH4_4g06440 FvH4_4g06440 FvH4_4g06440
malus_domestica	MD13G1236000.v1.1 MD16G1240700.v1.1 MD16G1240800.v1.1 MD16G1241000.v1.1
prunus_persica	Prupe.1G067700_v2.0.a1 Prupe.1G067700_v2.0.a1
pyrus_communis	pycom13g20870 pycom13g20880 pycom13g21910 pycom16g20170
rosa_chinensis	RchiOBHm_Chr4g0398221 RchiOBHm_Chr5g0038481
rosa_laevigata	RLG00000009377
rosa_multiflora	Rmu_sc0013706.1_g000001 Rmu_sc0020611.1_g000004 Rmu_sc0032626.1_g000001 Rmu_ssc0000049.1_g000006
rosa_roxburghii	Rroxscaffold_5G00343210
rosa_rugosa	Rorug04G0007100 Rorug04G0007100
rosa_samantha	Rh4AG084200 Rh4BG081600 Rh4CG091500 Rh4CG091600 Rh4DG076700
rosa_wichuraiana	Rw4G007010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	131
AccB1I	GGYRCC	1 cut(s)	131
AccB7I	CCANNNNNTGG	1 cut(s)	141
AccI	GTMKAC	2 cut(s)	159, 1074
AciI	CCGC	6 cut(s)	100, 367, 597, 655, 847, 949
AcoI	YGGCCR	1 cut(s)	408
AcsI	RAATTY	3 cut(s)	611, 658, 842
AcuI	CTGAAG	1 cut(s)	294
AcvI	CACGTG	1 cut(s)	88
AfaI	GTAC	4 cut(s)	133, 299, 385, 440
AfiI	CCNNNNNNNGG	4 cut(s)	141, 323, 448, 955
AgsI	TTSAA	5 cut(s)	19, 150, 874, 1006, 1197
AjnI	CCWGG	6 cut(s)	125, 441, 540, 849, 919, 1048
AluBI	AGCT	5 cut(s)	265, 272, 278, 509, 588
AluI	AGCT	5 cut(s)	265, 272, 278, 509, 588
Alw21I	GWGCWC	1 cut(s)	490
Alw26I	GTCTC	3 cut(s)	143, 451, 889
Alw44I	GTGCAC	1 cut(s)	486
AlwNI	CAGNNNCTG	1 cut(s)	141
AoxI	GGCC	4 cut(s)	292, 408, 957, 1046
ApaLI	GTGCAC	1 cut(s)	486
ApeKI	GCWGC	1 cut(s)	925
ApoI	RAATTY	3 cut(s)	611, 658, 842
AseI	ATTAAT	1 cut(s)	771
Asp700I	GAANNNNTTC	1 cut(s)	878
Asp718I	GGTACC	1 cut(s)	131
AsuHPI	GGTGA	3 cut(s)	191, 722, 1083
AsuNHI	GCTAGC	1 cut(s)	209
BaeGI	GKGCMC	1 cut(s)	490
BanI	GGYRCC	1 cut(s)	131
BanII	GRGCYC	1 cut(s)	431
BbrPI	CACGTG	1 cut(s)	88
BbsI	GAAGAC	2 cut(s)	561, 795
Bbv12I	GWGCWC	1 cut(s)	490
BbvI	GCAGC	1 cut(s)	937
BccI	CCATC	4 cut(s)	86, 383, 488, 1053
BciT130I	CCWGG	6 cut(s)	127, 443, 542, 851, 921, 1050
BciVI	GTATCC	1 cut(s)	1046
BcoDI	GTCTC	3 cut(s)	143, 451, 889
BfaI	CTAG	3 cut(s)	210, 1080, 1110
BfmI	CTRYAG	1 cut(s)	899
BfuI	GTATCC	1 cut(s)	1046
BglI	GCCNNNNNGGC	1 cut(s)	1045
BglII	AGATCT	1 cut(s)	990
BisI	GCNGC	3 cut(s)	368, 926, 949
BlsI	GCNGC	3 cut(s)	369, 927, 950
Bme1390I	CCNGG	6 cut(s)	127, 443, 542, 851, 921, 1050
BmiI	GGNNCC	5 cut(s)	98, 133, 199, 428, 1065
BmrFI	CCNGG	6 cut(s)	127, 443, 542, 851, 921, 1050
BmrI	ACTGGG	1 cut(s)	331
BmsI	GCATC	5 cut(s)	72, 274, 1153, 1170, 1216
BmtI	GCTAGC	1 cut(s)	213
BmuI	ACTGGG	1 cut(s)	331
BpiI	GAAGAC	2 cut(s)	561, 795
BpmI	CTGGAG	1 cut(s)	1200
BsaAI	YACGTR	1 cut(s)	88
BsaI	GGTCTC	1 cut(s)	451
BsaJI	CCNNGG	6 cut(s)	26, 126, 461, 685, 920, 1068
BsaWI	WCCGGW	1 cut(s)	780
Bsc4I	CCNNNNNNNGG	4 cut(s)	141, 323, 448, 955
Bse1I	ACTGG	6 cut(s)	135, 199, 326, 938, 1011, 1217
Bse3DI	GCAATG	1 cut(s)	996
BseBI	CCWGG	6 cut(s)	127, 443, 542, 851, 921, 1050
BseDI	CCNNGG	6 cut(s)	26, 126, 461, 685, 920, 1068
BseGI	GGATG	3 cut(s)	97, 289, 1200
BseLI	CCNNNNNNNGG	4 cut(s)	141, 323, 448, 955
BseMI	GCAATG	1 cut(s)	996
BseMII	CTCAG	2 cut(s)	629, 990
BseNI	ACTGG	6 cut(s)	135, 199, 326, 938, 1011, 1217
BseSI	GKGCMC	1 cut(s)	490
BseXI	GCAGC	1 cut(s)	937
BshFI	GGCC	4 cut(s)	294, 410, 959, 1048
BshNI	GGYRCC	1 cut(s)	131
BsiHKAI	GWGCWC	1 cut(s)	490
BsiSI	CCGG	1 cut(s)	781
BslI	CCNNNNNNNGG	4 cut(s)	141, 323, 448, 955
BsmAI	GTCTC	3 cut(s)	143, 451, 889
BsmI	GAATGC	1 cut(s)	419
BsnI	GGCC	4 cut(s)	294, 410, 959, 1048
Bso31I	GGTCTC	1 cut(s)	451
Bsp1286I	GDGCHC	2 cut(s)	431, 490
Bsp143I	GATC	2 cut(s)	106, 990
Bsp19I	CCATGG	1 cut(s)	461
BspACI	CCGC	6 cut(s)	100, 367, 597, 655, 847, 949
BspANI	GGCC	4 cut(s)	294, 410, 959, 1048
BspCNI	CTCAG	2 cut(s)	630, 989
BspLI	GGNNCC	5 cut(s)	98, 133, 199, 428, 1065
BspMAI	CTGCAG	1 cut(s)	903
BspOI	GCTAGC	1 cut(s)	213
BspT107I	GGYRCC	1 cut(s)	131
BspTNI	GGTCTC	1 cut(s)	451
BsrDI	GCAATG	1 cut(s)	996
BsrI	ACTGG	6 cut(s)	135, 199, 326, 938, 1011, 1217
BssECI	CCNNGG	6 cut(s)	26, 126, 461, 685, 920, 1068
BssMI	GATC	2 cut(s)	106, 990
BssNAI	GTATAC	1 cut(s)	160
BssT1I	CCWWGG	3 cut(s)	461, 685, 1068
Bst1107I	GTATAC	1 cut(s)	160
Bst2UI	CCWGG	6 cut(s)	127, 443, 542, 851, 921, 1050
Bst4CI	ACNGT	3 cut(s)	364, 470, 1146
Bst6I	CTCTTC	2 cut(s)	792, 977
BstBAI	YACGTR	1 cut(s)	88
BstC8I	GCNNGC	3 cut(s)	211, 1085, 1212
BstDEI	CTNAG	4 cut(s)	638, 976, 1184, 1230
BstDSI	CCRYGG	1 cut(s)	461
BstF5I	GGATG	3 cut(s)	97, 289, 1200
BstKTI	GATC	2 cut(s)	109, 993
BstMAI	GTCTC	3 cut(s)	143, 451, 889
BstMBI	GATC	2 cut(s)	106, 990
BstMWI	GCNNNNNNNGC	5 cut(s)	284, 594, 652, 1007, 1045
BstNI	CCWGG	6 cut(s)	127, 443, 542, 851, 921, 1050
BstNSI	RCATGY	1 cut(s)	313
BstSCI	CCNGG	6 cut(s)	125, 441, 540, 849, 919, 1048
BstSFI	CTRYAG	1 cut(s)	899
BstSLI	GKGCMC	1 cut(s)	490
BstV1I	GCAGC	1 cut(s)	937
BstV2I	GAAGAC	2 cut(s)	561, 795
BstX2I	RGATCY	1 cut(s)	990
BstYI	RGATCY	1 cut(s)	990
BstZ17I	GTATAC	1 cut(s)	160
BsuI	GTATCC	1 cut(s)	1046
BsuRI	GGCC	4 cut(s)	294, 410, 959, 1048
BtgI	CCRYGG	1 cut(s)	461
BtsCI	GGATG	3 cut(s)	97, 289, 1200
BtsI	GCAGTG	2 cut(s)	908, 1034
BtsIMutI	CAGTG	6 cut(s)	319, 369, 633, 908, 984, 1034
Cac8I	GCNNGC	3 cut(s)	211, 1085, 1212
CaiI	CAGNNNCTG	1 cut(s)	141
Csp6I	GTAC	4 cut(s)	132, 298, 384, 439
CviAII	CATG	8 cut(s)	229, 254, 310, 462, 491, 676, 758, 908
CviQI	GTAC	4 cut(s)	132, 298, 384, 439
DdeI	CTNAG	4 cut(s)	638, 976, 1184, 1230
DpnI	GATC	2 cut(s)	108, 992
DpnII	GATC	2 cut(s)	106, 990
EaeI	YGGCCR	1 cut(s)	408
Eam1104I	CTCTTC	2 cut(s)	792, 977
EarI	CTCTTC	2 cut(s)	792, 977
EciI	GGCGGA	1 cut(s)	836
Eco130I	CCWWGG	3 cut(s)	461, 685, 1068
Eco147I	AGGCCT	2 cut(s)	294, 1048
Eco24I	GRGCYC	1 cut(s)	431
Eco31I	GGTCTC	1 cut(s)	451
Eco57I	CTGAAG	1 cut(s)	294
Eco72I	CACGTG	1 cut(s)	88
EcoRI	GAATTC	1 cut(s)	611
EcoRII	CCWGG	6 cut(s)	125, 441, 540, 849, 919, 1048
EcoT14I	CCWWGG	3 cut(s)	461, 685, 1068
EcoT38I	GRGCYC	1 cut(s)	431
ErhI	CCWWGG	3 cut(s)	461, 685, 1068
FaeI	CATG	8 cut(s)	232, 257, 313, 465, 494, 679, 761, 911
FalI	AAGNNNNNCTT	2 cut(s)	1177, 1209
FatI	CATG	8 cut(s)	228, 253, 309, 461, 490, 675, 757, 907
FblI	GTMKAC	2 cut(s)	159, 1074
Fnu4HI	GCNGC	3 cut(s)	368, 926, 949
FokI	GGATG	3 cut(s)	104, 296, 1187
FriOI	GRGCYC	1 cut(s)	431
Fsp4HI	GCNGC	3 cut(s)	368, 926, 949
FspBI	CTAG	3 cut(s)	210, 1080, 1110
GluI	GCNGC	3 cut(s)	368, 926, 949
GsuI	CTGGAG	1 cut(s)	1200
HaeIII	GGCC	4 cut(s)	294, 410, 959, 1048
HapII	CCGG	1 cut(s)	781
Hin1II	CATG	8 cut(s)	232, 257, 313, 465, 494, 679, 761, 911
HincII	GTYRAC	2 cut(s)	189, 973
HindII	GTYRAC	2 cut(s)	189, 973
HindIII	AAGCTT	1 cut(s)	276
HinfI	GANTC	6 cut(s)	146, 166, 574, 800, 860, 974
HpaII	CCGG	1 cut(s)	781
HphI	GGTGA	3 cut(s)	191, 722, 1083
Hpy166II	GTNNAC	6 cut(s)	160, 189, 488, 973, 1027, 1075
Hpy188I	TCNGA	5 cut(s)	27, 171, 337, 811, 821
Hpy188III	TCNNGA	2 cut(s)	356, 1160
Hpy8I	GTNNAC	6 cut(s)	160, 189, 488, 973, 1027, 1075
HpyAV	CCTTC	5 cut(s)	170, 440, 787, 1012, 1098
HpyCH4III	ACNGT	3 cut(s)	364, 470, 1146
HpyCH4IV	ACGT	1 cut(s)	87
HpyCH4V	TGCA	5 cut(s)	85, 287, 488, 901, 1136
HpyF10VI	GCNNNNNNNGC	5 cut(s)	284, 594, 652, 1007, 1045
HpyF3I	CTNAG	4 cut(s)	638, 976, 1184, 1230
HpySE526I	ACGT	1 cut(s)	87
Hsp92II	CATG	8 cut(s)	232, 257, 313, 465, 494, 679, 761, 911
KpnI	GGTACC	1 cut(s)	135
Kzo9I	GATC	2 cut(s)	106, 990
LmnI	GCTCC	2 cut(s)	426, 1219
Lsp1109I	GCAGC	1 cut(s)	937
LweI	GCATC	5 cut(s)	72, 274, 1153, 1170, 1216
MaeI	CTAG	3 cut(s)	210, 1080, 1110
MaeII	ACGT	1 cut(s)	87
MaeIII	GTNAC	6 cut(s)	73, 179, 356, 517, 861, 1112
MalI	GATC	2 cut(s)	108, 992
MboI	GATC	2 cut(s)	106, 990
MboII	GAAGA	6 cut(s)	47, 566, 795, 809, 994, 1185
MflI	RGATCY	1 cut(s)	990
MhlI	GDGCHC	2 cut(s)	431, 490
MluCI	AATT	8 cut(s)	433, 475, 611, 658, 763, 772, 842, 1168
MlyI	GAGTC	4 cut(s)	175, 809, 869, 968
MroXI	GAANNNNTTC	1 cut(s)	878
MseI	TTAA	3 cut(s)	32, 771, 1140
MslI	CAYNNNNRTG	2 cut(s)	90, 626
MspI	CCGG	1 cut(s)	781
MspR9I	CCNGG	6 cut(s)	127, 443, 542, 851, 921, 1050
Mva1269I	GAATGC	1 cut(s)	419
MvaI	CCWGG	6 cut(s)	127, 443, 542, 851, 921, 1050
MwoI	GCNNNNNNNGC	5 cut(s)	284, 594, 652, 1007, 1045
NcoI	CCATGG	1 cut(s)	461
NdeII	GATC	2 cut(s)	106, 990
NheI	GCTAGC	1 cut(s)	209
NlaIII	CATG	8 cut(s)	232, 257, 313, 465, 494, 679, 761, 911
NlaIV	GGNNCC	5 cut(s)	98, 133, 199, 428, 1065
NmuCI	GTSAC	4 cut(s)	179, 356, 861, 1112
NspI	RCATGY	1 cut(s)	313
PceI	AGGCCT	2 cut(s)	294, 1048
PcsI	WCGNNNNNNNCGW	1 cut(s)	1218
PctI	GAATGC	1 cut(s)	419
PdmI	GAANNNNTTC	1 cut(s)	878
PfeI	GAWTC	2 cut(s)	146, 574
PflMI	CCANNNNNTGG	1 cut(s)	141
PkrI	GCNGC	3 cut(s)	369, 927, 950
PleI	GAGTC	4 cut(s)	174, 808, 868, 968
PmaCI	CACGTG	1 cut(s)	88
PmlI	CACGTG	1 cut(s)	88
PpsI	GAGTC	4 cut(s)	174, 808, 868, 968
Ppu21I	YACGTR	1 cut(s)	88
PshBI	ATTAAT	1 cut(s)	771
Psp6I	CCWGG	6 cut(s)	125, 441, 540, 849, 919, 1048
PspCI	CACGTG	1 cut(s)	88
PspGI	CCWGG	6 cut(s)	125, 441, 540, 849, 919, 1048
PspN4I	GGNNCC	5 cut(s)	98, 133, 199, 428, 1065
PstI	CTGCAG	1 cut(s)	903
PstNI	CAGNNNCTG	1 cut(s)	141
PsuI	RGATCY	1 cut(s)	990
RsaI	GTAC	4 cut(s)	133, 299, 385, 440
RsaNI	GTAC	4 cut(s)	132, 298, 384, 439
RseI	CAYNNNNRTG	2 cut(s)	90, 626
SaqAI	TTAA	3 cut(s)	32, 771, 1140
SatI	GCNGC	3 cut(s)	368, 926, 949
Sau3AI	GATC	2 cut(s)	106, 990
SchI	GAGTC	4 cut(s)	175, 809, 869, 968
ScrFI	CCNGG	6 cut(s)	127, 443, 542, 851, 921, 1050
SduI	GDGCHC	2 cut(s)	431, 490
SfaNI	GCATC	5 cut(s)	72, 274, 1153, 1170, 1216
SfcI	CTRYAG	1 cut(s)	899
SmiMI	CAYNNNNRTG	2 cut(s)	90, 626
Sse9I	AATT	8 cut(s)	433, 475, 611, 658, 763, 772, 842, 1168
SseBI	AGGCCT	2 cut(s)	294, 1048
SsiI	CCGC	6 cut(s)	100, 367, 597, 655, 847, 949
SspMI	CTAG	3 cut(s)	210, 1080, 1110
StuI	AGGCCT	2 cut(s)	294, 1048
StyD4I	CCNGG	6 cut(s)	125, 441, 540, 849, 919, 1048
StyI	CCWWGG	3 cut(s)	461, 685, 1068
TaaI	ACNGT	3 cut(s)	364, 470, 1146
TaiI	ACGT	1 cut(s)	90
TaqI	TCGA	1 cut(s)	1221
TasI	AATT	8 cut(s)	433, 475, 611, 658, 763, 772, 842, 1168
TauI	GCSGC	2 cut(s)	370, 951
TfiI	GAWTC	2 cut(s)	146, 574
Tru1I	TTAA	3 cut(s)	32, 771, 1140
Tru9I	TTAA	3 cut(s)	32, 771, 1140
TscAI	CASTG	6 cut(s)	326, 369, 633, 908, 984, 1041
TseFI	GTSAC	4 cut(s)	179, 356, 861, 1112
TseI	GCWGC	1 cut(s)	925
Tsp45I	GTSAC	4 cut(s)	179, 356, 861, 1112
TspDTI	ATGAA	2 cut(s)	242, 795
TspGWI	ACGGA	2 cut(s)	564, 582
TspRI	CASTG	6 cut(s)	326, 369, 633, 908, 984, 1041
Van91I	CCANNNNNTGG	1 cut(s)	141
VneI	GTGCAC	1 cut(s)	486
VspI	ATTAAT	1 cut(s)	771
XapI	RAATTY	3 cut(s)	611, 658, 842
XceI	RCATGY	1 cut(s)	313
XmiI	GTMKAC	2 cut(s)	159, 1074
XmnI	GAANNNNTTC	1 cut(s)	878
XspI	CTAG	3 cut(s)	210, 1080, 1110

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