Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0000937

Physical Location & Seq

Genomic Coordinates Forward (+)

6400552 .. 6406051

Gene Structure 5500 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG035500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1263 bp

ATGTTGTTTAATATATCAACTACGAAATGGTTTGGTTTTTGTGTTTTTTTTTTTGTCGAGAATCCAGAATCATCGAGAGAGAGGGAGGGAGGGAGAGCGCTTCAGACTGAAAGTGTGCTAGAACGATTTAGAGATAGAGAGAGAGATCTGATCCCTCATCGTTGCAGGCAGAAAGAGAGAGGAGCTTTGGGGAAGTTATCCAACTTATTTTACAAGGCAGAATCATCAAACTCCCAAAATAAAAATAGCAGTAATGAATCCAGAGGAACTAAAGAGGAAACGTCATCTCTAGAAGGGTTCTACGAAGAACTCCCTATCGCAAAAAAAATTGCTGTAGTGAATTTAGTAACTGTTTCTGTCAGGAAGTGCCCTGAGACTGCTAAGAATCTTCTATATTTGGAAACAGATTTACCTGATCATGTTGTTGTTGTTCACTGGGGAGTTTGCAAAGATGATGCTAAAAGATGGGAAATTCCAGCAGCCCCACATCCGCCAGAAACAGTAGTTTTCAAGGATAAGGCTTTGCGAACCCGATTGCAGCTAAGTGAAAGTACATGGTTGAAATGTAAGGGCAATGACTTCTACATTCCCCTTTCAAGCGCAAATAACTCACCTGCTGCAGCAAAGGAGGATCAATATGAAGGTGCTGATGTAGATGAGGGAAGTGCAGAAGAAATAGATGAAAGTTCTTTTACTGAATATGCCAATGGAATAATAAATGAAATAAGGATCTTGGTGAGTGGCATTTCCTCTGAGAAGAGTCGAAAGACAAAATCCAAAGAAGCACAAGAAAGCATTCTTCAAGAAATAGAAAAATTGGCTGCTGAAGCCTATAGTATCTTCAGAAGCACTGTTCCCACATTTACTGAGGAAGCTATTTCAGAATCTGAAGAATTAGCACTGAAAATAACCTCAGGGACAGGCACGGGATTTGAAATATTGTGCCAAGTAATGGCAACAAAAACTGGAAGAACAAAGATGATGAGACTTTTACGAGATGATGATGCAGAGGATCAAGGTAGTCAAAGACAAGGAGAGAGAATATCTAATTATCAAGCTTTGGTTGCTGTTTTTGATATGGACACACGTCCTCAGATTATATCAAAAAAGTGGAAACAAGGTCTCAGTTATGCTCCATTCGAGTCATCGTCGCAGAAATACTTGACGGACAATGGGAGTGTCTTTATGACCAAGTATTTGTTGCCTCCTCAAGTGGGAAGGAGTTGGGAAAGTGGAAATCCCCATGAGGCTGTAGATTTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000272 GO:0003674 GO:0003824 GO:0004553 GO:0004556 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005975 GO:0005976 GO:0005982 GO:0005983 GO:0005984 GO:0005985 GO:0005987 GO:0006073 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009251 GO:0009311 GO:0009313 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0016052 GO:0016160 GO:0016787 GO:0016798 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:0046352 GO:0071704 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Alpha-amyl_C2 Alpha-amylase

Protein Analysis

420

Amino Acids

47.34

Weight (kDa)

5.35

Isoelectric Point (pI)

49.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ig_N_CWD1	PF23166	107 - 184	1.2e-20	Alpha-glucan water dikinase 1 Ig-like N-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: OG0000937)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G69830
fragaria_vesca	FvH4_4g31910 FvH4_4g31910
malus_domestica	MD13G1078600.v1.1 MD16G1078200.v1.1
prunus_persica	Prupe.1G268300_v2.0.a1 Prupe.1G268300_v2.0.a1
pyrus_communis	pycom13g06820 pycom16g06770
rosa_chinensis	RchiOBHm_Chr1g0315221 RchiOBHm_Chr1g0339091 RchiOBHm_Chr4g0440561 RchiOBHm_Chr5g0021421 RchiOBHm_Chr6g0272311
rosa_laevigata	RLG00000006168 RLG00000015039 RLG00000019642 RLG00000030692
rosa_multiflora	Rmu_co8071990.1_g000001 Rmu_sc0000829.1_g000011 Rmu_sc0002387.1_g000011 Rmu_sc0011312.1_g000002
rosa_roxburghii	Rroxscaffold_4G00298760 Rroxscaffold_5G00381380 Rroxscaffold_6G00426500 Rroxscaffold_7G00169140 Rroxscaffold_7G00214180
rosa_rugosa	Rorug01G0004200 Rorug04G0326700 Rorug05G0356300 Rorug05G0477400 Rorug05G0527600 Rorug07G0284000
rosa_samantha	Rh1AG270700 Rh1AG270800 Rh1AG346400 Rh1BG260100 Rh1CG254500 Rh2AG416800 Rh2CG403000 Rh3DG074600 Rh3DG292400 Rh4AG190200 Rh4AG246600 Rh4AG378400 Rh4BG035500 Rh4BG391100 Rh4CG405800 Rh4DG085900 Rh4DG385000 Rh5AG156300 Rh5AG268600 Rh5AG480700 Rh5BG155700 Rh5CG169500 Rh6AG024000 Rh6BG089200 Rh6DG025600 Rh7CG251800
rosa_wichuraiana	Rw1G024120 Rw1G030800 Rw4G032400 Rw4G032500 Rw7G034860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	622
Acc36I	ACCTGC	1 cut(s)	622
AccB7I	CCANNNNNTGG	1 cut(s)	952
AciI	CCGC	1 cut(s)	491
AclWI	GGATC	4 cut(s)	145, 639, 737, 1020
AcsI	RAATTY	2 cut(s)	340, 471
AcuI	CTGAAG	4 cut(s)	86, 826, 846, 909
AfaI	GTAC	1 cut(s)	553
AfeI	AGCGCT	1 cut(s)	99
AfiI	CCNNNNNNNGG	2 cut(s)	952, 1214
AflIII	ACRYGT	1 cut(s)	1085
AgsI	TTSAA	5 cut(s)	511, 562, 597, 803, 935
AjiI	CACGTC	1 cut(s)	1088
AluBI	AGCT	4 cut(s)	185, 541, 875, 1058
AluI	AGCT	4 cut(s)	185, 541, 875, 1058
Alw26I	GTCTC	3 cut(s)	368, 979, 1127
AlwI	GGATC	4 cut(s)	145, 639, 737, 1020
AlwNI	CAGNNNCTG	1 cut(s)	887
Aor51HI	AGCGCT	1 cut(s)	99
ApeKI	GCWGC	5 cut(s)	479, 538, 617, 620, 821
ApoI	RAATTY	2 cut(s)	340, 471
ArsI	GACNNNNNNTTYG	2 cut(s)	1180, 1212
Asp700I	GAANNNNTTC	1 cut(s)	795
AspLEI	GCGC	2 cut(s)	100, 602
AsuHPI	GGTGA	2 cut(s)	603, 748
AxyI	CCTNAGG	1 cut(s)	913
BaeGI	GKGCMC	1 cut(s)	371
BbvI	GCAGC	5 cut(s)	491, 550, 604, 632, 808
BccI	CCATC	1 cut(s)	459
BclI	TGATCA	1 cut(s)	415
BcoDI	GTCTC	3 cut(s)	368, 979, 1127
BfaI	CTAG	3 cut(s)	119, 290, 1261
BfmI	CTRYAG	4 cut(s)	333, 618, 832, 1251
BfoI	RGCGCY	1 cut(s)	101
BfuAI	ACCTGC	1 cut(s)	622
BglII	AGATCT	1 cut(s)	145
BisI	GCNGC	5 cut(s)	480, 539, 618, 621, 822
BlsI	GCNGC	5 cut(s)	481, 540, 619, 622, 823
BmgBI	CACGTC	1 cut(s)	1088
BmrI	ACTGGG	1 cut(s)	445
BmsI	GCATC	2 cut(s)	445, 994
BmuI	ACTGGG	1 cut(s)	445
BoxI	GACNNNNGTC	1 cut(s)	1086
BpuEI	CTTGAG	1 cut(s)	1194
BsaI	GGTCTC	1 cut(s)	1127
Bsc4I	CCNNNNNNNGG	2 cut(s)	952, 1214
Bse1I	ACTGG	2 cut(s)	440, 970
Bse21I	CCTNAGG	1 cut(s)	913
Bse3DI	GCAATG	1 cut(s)	580
BseGI	GGATG	1 cut(s)	487
BseLI	CCNNNNNNNGG	2 cut(s)	952, 1214
BseMI	GCAATG	1 cut(s)	580
BseMII	CTCAG	6 cut(s)	363, 744, 858, 927, 1106, 1138
BseNI	ACTGG	2 cut(s)	440, 970
BseRI	GAGGAG	2 cut(s)	195, 1197
BseSI	GKGCMC	1 cut(s)	371
BseXI	GCAGC	5 cut(s)	491, 550, 604, 632, 808
BsgI	GTGCAG	1 cut(s)	687
BslFI	GGGAC	1 cut(s)	931
BslI	CCNNNNNNNGG	2 cut(s)	952, 1214
BsmAI	GTCTC	3 cut(s)	368, 979, 1127
BsmFI	GGGAC	1 cut(s)	931
BsmI	GAATGC	1 cut(s)	795
Bso31I	GGTCTC	1 cut(s)	1127
Bsp1286I	GDGCHC	1 cut(s)	371
Bsp143I	GATC	6 cut(s)	145, 150, 415, 631, 729, 1012
BspACI	CCGC	1 cut(s)	491
BspCNI	CTCAG	6 cut(s)	364, 745, 859, 926, 1105, 1137
BspMAI	CTGCAG	1 cut(s)	622
BspMI	ACCTGC	1 cut(s)	622
BspPI	GGATC	4 cut(s)	145, 639, 737, 1020
BspTNI	GGTCTC	1 cut(s)	1127
BsrDI	GCAATG	1 cut(s)	580
BsrI	ACTGG	2 cut(s)	440, 970
BssMI	GATC	6 cut(s)	145, 150, 415, 631, 729, 1012
Bst4CI	ACNGT	3 cut(s)	352, 502, 853
Bst6I	CTCTTC	1 cut(s)	752
BstC8I	GCNNGC	1 cut(s)	167
BstDEI	CTNAG	8 cut(s)	372, 381, 542, 753, 867, 913, 1092, 1124
BstF5I	GGATG	1 cut(s)	487
BstH2I	RGCGCY	1 cut(s)	101
BstHHI	GCGC	2 cut(s)	100, 602
BstKTI	GATC	6 cut(s)	148, 153, 418, 634, 732, 1015
BstMAI	GTCTC	3 cut(s)	368, 979, 1127
BstMBI	GATC	6 cut(s)	145, 150, 415, 631, 729, 1012
BstMWI	GCNNNNNNNGC	2 cut(s)	827, 1064
BstPAI	GACNNNNGTC	1 cut(s)	1086
BstSFI	CTRYAG	4 cut(s)	333, 618, 832, 1251
BstSLI	GKGCMC	1 cut(s)	371
BstV1I	GCAGC	5 cut(s)	491, 550, 604, 632, 808
BstX2I	RGATCY	2 cut(s)	145, 729
BstYI	RGATCY	2 cut(s)	145, 729
Bsu36I	CCTNAGG	1 cut(s)	913
BtrI	CACGTC	1 cut(s)	1088
BtsCI	GGATG	1 cut(s)	487
BtsIMutI	CAGTG	3 cut(s)	433, 849, 899
BveI	ACCTGC	1 cut(s)	622
Cac8I	GCNNGC	1 cut(s)	167
CaiI	CAGNNNCTG	1 cut(s)	887
CfoI	GCGC	2 cut(s)	100, 602
Csp6I	GTAC	1 cut(s)	552
CviAII	CATG	3 cut(s)	419, 555, 1244
CviJI	RGCY	9 cut(s)	185, 482, 521, 541, 821, 830, 875, 1058, 1250
CviKI_1	RGCY	9 cut(s)	185, 482, 521, 541, 821, 830, 875, 1058, 1250
CviQI	GTAC	1 cut(s)	552
DdeI	CTNAG	8 cut(s)	372, 381, 542, 753, 867, 913, 1092, 1124
DpnI	GATC	6 cut(s)	147, 152, 417, 633, 731, 1014
DpnII	GATC	6 cut(s)	145, 150, 415, 631, 729, 1012
Eam1104I	CTCTTC	1 cut(s)	752
EarI	CTCTTC	1 cut(s)	752
EciI	GGCGGA	1 cut(s)	480
Eco31I	GGTCTC	1 cut(s)	1127
Eco47III	AGCGCT	1 cut(s)	99
Eco57I	CTGAAG	4 cut(s)	86, 826, 846, 909
Eco81I	CCTNAGG	1 cut(s)	913
FaeI	CATG	3 cut(s)	422, 558, 1247
FaqI	GGGAC	1 cut(s)	931
FatI	CATG	3 cut(s)	418, 554, 1243
FbaI	TGATCA	1 cut(s)	415
Fnu4HI	GCNGC	5 cut(s)	480, 539, 618, 621, 822
FokI	GGATG	1 cut(s)	474
Fsp4HI	GCNGC	5 cut(s)	480, 539, 618, 621, 822
FspBI	CTAG	3 cut(s)	119, 290, 1261
GlaI	GCGC	2 cut(s)	99, 601
GluI	GCNGC	5 cut(s)	480, 539, 618, 621, 822
HaeII	RGCGCY	1 cut(s)	101
HhaI	GCGC	2 cut(s)	100, 602
Hin1II	CATG	3 cut(s)	422, 558, 1247
Hin6I	GCGC	2 cut(s)	98, 600
HinP1I	GCGC	2 cut(s)	98, 600
HindIII	AAGCTT	1 cut(s)	1056
HinfI	GANTC	8 cut(s)	61, 68, 221, 257, 385, 760, 884, 1142
HphI	GGTGA	2 cut(s)	603, 748
Hpy166II	GTNNAC	1 cut(s)	433
Hpy188I	TCNGA	7 cut(s)	105, 150, 754, 845, 883, 889, 1095
Hpy188III	TCNNGA	7 cut(s)	58, 65, 75, 261, 290, 361, 803
Hpy8I	GTNNAC	1 cut(s)	433
Hpy99I	CGWCG	1 cut(s)	1153
HpyAV	CCTTC	3 cut(s)	287, 635, 1212
HpyCH4III	ACNGT	3 cut(s)	352, 502, 853
HpyCH4IV	ACGT	2 cut(s)	281, 1087
HpyCH4V	TGCA	6 cut(s)	165, 447, 538, 620, 668, 1007
HpyF10VI	GCNNNNNNNGC	2 cut(s)	827, 1064
HpyF3I	CTNAG	8 cut(s)	372, 381, 542, 753, 867, 913, 1092, 1124
HpySE526I	ACGT	2 cut(s)	281, 1087
Hsp92II	CATG	3 cut(s)	422, 558, 1247
HspAI	GCGC	2 cut(s)	98, 600
Ksp22I	TGATCA	1 cut(s)	415
Kzo9I	GATC	6 cut(s)	145, 150, 415, 631, 729, 1012
LmnI	GCTCC	2 cut(s)	182, 1138
Lsp1109I	GCAGC	5 cut(s)	491, 550, 604, 632, 808
LweI	GCATC	2 cut(s)	445, 994
MaeI	CTAG	3 cut(s)	119, 290, 1261
MaeII	ACGT	2 cut(s)	281, 1087
MaeIII	GTNAC	1 cut(s)	346
MalI	GATC	6 cut(s)	147, 152, 417, 633, 731, 1014
MboI	GATC	6 cut(s)	145, 150, 415, 631, 729, 1012
MboII	GAAGA	8 cut(s)	317, 380, 683, 769, 791, 832, 902, 981
MflI	RGATCY	2 cut(s)	145, 729
MhlI	GDGCHC	1 cut(s)	371
MluCI	AATT	6 cut(s)	327, 340, 471, 815, 893, 1048
MlyI	GAGTC	2 cut(s)	769, 1151
MmeI	TCCRAC	1 cut(s)	225
MroXI	GAANNNNTTC	1 cut(s)	795
MseI	TTAA	1 cut(s)	9
Mva1269I	GAATGC	1 cut(s)	795
MwoI	GCNNNNNNNGC	2 cut(s)	827, 1064
NdeII	GATC	6 cut(s)	145, 150, 415, 631, 729, 1012
NlaIII	CATG	3 cut(s)	422, 558, 1247
PaqCI	CACCTGC	1 cut(s)	622
PctI	GAATGC	1 cut(s)	795
PdmI	GAANNNNTTC	1 cut(s)	795
PfeI	GAWTC	6 cut(s)	61, 68, 221, 257, 385, 884
PflMI	CCANNNNNTGG	1 cut(s)	952
PkrI	GCNGC	5 cut(s)	481, 540, 619, 622, 823
PleI	GAGTC	2 cut(s)	768, 1150
PpsI	GAGTC	2 cut(s)	768, 1150
PshAI	GACNNNNGTC	1 cut(s)	1086
PstI	CTGCAG	1 cut(s)	622
PstNI	CAGNNNCTG	1 cut(s)	887
PsuI	RGATCY	2 cut(s)	145, 729
RsaI	GTAC	1 cut(s)	553
RsaNI	GTAC	1 cut(s)	552
SaqAI	TTAA	1 cut(s)	9
SatI	GCNGC	5 cut(s)	480, 539, 618, 621, 822
Sau3AI	GATC	6 cut(s)	145, 150, 415, 631, 729, 1012
SchI	GAGTC	2 cut(s)	769, 1151
SduI	GDGCHC	1 cut(s)	371
SfaNI	GCATC	2 cut(s)	445, 994
SfcI	CTRYAG	4 cut(s)	333, 618, 832, 1251
SmlI	CTYRAG	1 cut(s)	1209
SmoI	CTYRAG	1 cut(s)	1209
Sse9I	AATT	6 cut(s)	327, 340, 471, 815, 893, 1048
SsiI	CCGC	1 cut(s)	491
SspI	AATATT	1 cut(s)	939
SspMI	CTAG	3 cut(s)	119, 290, 1261
TaaI	ACNGT	3 cut(s)	352, 502, 853
TaiI	ACGT	2 cut(s)	284, 1090
TaqI	TCGA	4 cut(s)	57, 74, 763, 1140
TasI	AATT	6 cut(s)	327, 340, 471, 815, 893, 1048
TatI	WGTACW	1 cut(s)	551
TfiI	GAWTC	6 cut(s)	61, 68, 221, 257, 385, 884
Tru1I	TTAA	1 cut(s)	9
Tru9I	TTAA	1 cut(s)	9
TscAI	CASTG	3 cut(s)	440, 856, 906
TseI	GCWGC	5 cut(s)	479, 538, 617, 620, 821
TspDTI	ATGAA	4 cut(s)	270, 654, 696, 735
TspGWI	ACGGA	1 cut(s)	1181
TspRI	CASTG	3 cut(s)	440, 856, 906
Van91I	CCANNNNNTGG	1 cut(s)	952
XapI	RAATTY	2 cut(s)	340, 471
XbaI	TCTAGA	1 cut(s)	289
XmnI	GAANNNNTTC	1 cut(s)	795
XspI	CTAG	3 cut(s)	119, 290, 1261

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