Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0019381

Physical Location & Seq

Genomic Coordinates Forward (+)

3805937 .. 3807226

Gene Structure 1290 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016090

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1290 bp

ATGTCGAAGGGTGAACTAATTAAGTTTGCAAGGTACAAGGCTTCAGTCATAGACCCCGGCACTCTTGGACTCTTAACCATTACAGAAAATAAAATTGAGTTCTGTGCCGATCCCAAATATGCCACAAAGCTATTTGAAGTGGGGCTTGAACATATTAAAGGACATCAACACACCAAAGAAGGATCAAATAAACCAGCCTGGCTAAATCTCAACATAGATAAGGATGGGACTAGGACTAGGTACATCTTTGAGCTCGATAGTTATCCAGATCTTCATGACTGCGTTGAATTTTTACGCAAGTTGCTTCTTGAGTTTAGCTGTAGAAAAGTTGGTTACAAAAGTTCGATGATATTTGACACCAAGCCTAGTAGAAAGGTTACATTTACTGAAGAGATTAAGCACCGGATCTTTGCTCTGAGGCCAGCTGTGCACCAGGCATATCTTAACAACGTAGTTCCCGGTAAGACCAAAGAGCATGACTTCTGGACAAAGTATTTCAATGCTGAACAGGTCCGAATGTATAGTGCAAAGAATGTCGTTGTAGCTGAAGCAGAAGCTACTGAGGATGAGGAAAAGGCAGTTTTTTTGAAGGATGATGAACTAGTTGCAGGGGAAGCTCGTAGGAAGATTCGACGTGTTGATCCAACTTTGGATATGGTAGCTGATCAAAGGGATGATCATACACATCTTCCTTTGCATGGGATCTTTCACCATGACATAAATGATGAAGAAGTGCAGAATAATAATCAAAAGAGGTGGAGGACTTTGCGGCAAGATGTTAACAGACAAGGAGCTGTAGTTCTTCAAGGAAAAAGAGCTGTGGAAGAGGAATTTACACGGCGTAGGTCAAAACAGGAATATTCTGATGATGAGAGTAGTGACGTGCAGCAGGAGAAGAGACTTGATAGGATTAGTTGGATAACTGAGATAGAGGACCTGGAAGAACCTCATTCTGTTGCTCCATTATGTTTAGATGCGGATCTTTGGGACTACTCGGAACTAGCTAGCGCTAATGCAGGGCTTAAAACTTTGGAGGATTCAAGTACTGGAAGTGAACAAAATAAAAAGGTGGTTTCTGCTCAGGAAGCATACGGCTCTTTGAGGGAGTCTATATCTGAAATTAAGAGCATTGGGCTGAGCAATGCCACAGTTGGACTGGAATTCAATGTTGAGGACTTTCTCAAGGAAGTAGGAAAAACTTCAGGTATTAAGGATCGACCTGCGACAGATCTGGACATGTTGCCCAAAACTAAGAGTCAACACATCAATGTTCCGTTTGATATGCATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000439 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005675 GO:0006139 GO:0006259 GO:0006281 GO:0006351 GO:0006355 GO:0006357 GO:0006360 GO:0006366 GO:0006464 GO:0006468 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016310 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019538 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032774 GO:0032806 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0046483 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070816 GO:0071704 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:1901360 GO:1901362 GO:1901564 GO:1901576 GO:1902494 GO:1902554 GO:1902911 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko03420 ko05203 map03022 map03420 map05203

Pfam Domains

Protein Families

BSD PH_TFIIH

Protein Analysis

430

Amino Acids

49.15

Weight (kDa)

5.68

Isoelectric Point (pI)

49.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
BSD	PF03909	129 - 168	5.2e-07	BSD 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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Orthologous Genes (Group: OG0019381)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0090241
rosa_laevigata	RLG00000016090
rosa_multiflora	Rmu_sc0000436.1_g000001 Rmu_sc0012828.1_g000002
rosa_roxburghii	Rroxscaffold_2G00151360
rosa_rugosa	Rorug02G0005600
rosa_samantha	Rh2DG051600
rosa_wichuraiana	Rw2G004520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	1228
AciI	CCGC	2 cut(s)	769, 977
AclWI	GGATC	7 cut(s)	104, 190, 413, 635, 710, 987, 1221
AcsI	RAATTY	3 cut(s)	287, 830, 1160
AcuI	CTGAAG	4 cut(s)	27, 408, 567, 1185
AfaI	GTAC	3 cut(s)	35, 242, 1045
AfeI	AGCGCT	1 cut(s)	1009
AfiI	CCNNNNNNNGG	1 cut(s)	698
AflIII	ACRYGT	2 cut(s)	634, 1236
AgsI	TTSAA	8 cut(s)	137, 149, 287, 499, 589, 806, 1041, 1165
AhlI	ACTAGT	1 cut(s)	601
AjiI	CACGTC	2 cut(s)	635, 883
AjnI	CCWGG	3 cut(s)	197, 432, 936
AloI	GAACNNNNNNTCC	2 cut(s)	783, 815
Alw21I	GWGCWC	2 cut(s)	255, 432
Alw26I	GTCTC	1 cut(s)	892
Alw44I	GTGCAC	1 cut(s)	428
AlwI	GGATC	7 cut(s)	104, 190, 413, 635, 710, 987, 1221
Aor51HI	AGCGCT	1 cut(s)	1009
AoxI	GGCC	1 cut(s)	419
ApaLI	GTGCAC	1 cut(s)	428
ApeKI	GCWGC	1 cut(s)	886
ApoI	RAATTY	3 cut(s)	287, 830, 1160
Asp700I	GAANNNNTTC	1 cut(s)	1198
AspLEI	GCGC	1 cut(s)	1010
AspS9I	GGNCC	2 cut(s)	511, 934
AsuC2I	CCSGG	2 cut(s)	57, 459
AsuHPI	GGTGA	2 cut(s)	23, 701
AsuNHI	GCTAGC	1 cut(s)	1004
AvaII	GGWCC	2 cut(s)	511, 934
BaeGI	GKGCMC	1 cut(s)	432
BanII	GRGCYC	1 cut(s)	255
Bbv12I	GWGCWC	2 cut(s)	255, 432
BbvI	GCAGC	1 cut(s)	898
BccI	CCATC	1 cut(s)	218
BceAI	ACGGC	2 cut(s)	854, 1108
BciT130I	CCWGG	3 cut(s)	199, 434, 938
BclI	TGATCA	2 cut(s)	664, 676
BcnI	CCSGG	2 cut(s)	57, 459
BcoDI	GTCTC	1 cut(s)	892
BcuI	ACTAGT	1 cut(s)	601
BfaI	CTAG	6 cut(s)	231, 237, 366, 602, 1001, 1005
BfmI	CTRYAG	2 cut(s)	319, 795
BfoI	RGCGCY	1 cut(s)	1011
BfuAI	ACCTGC	1 cut(s)	1228
BglII	AGATCT	2 cut(s)	268, 1228
BisI	GCNGC	2 cut(s)	770, 887
BlpI	GCTNAGC	1 cut(s)	1136
BlsI	GCNGC	2 cut(s)	771, 888
BmcAI	AGTACT	1 cut(s)	1045
Bme1390I	CCNGG	5 cut(s)	57, 199, 434, 459, 938
Bme18I	GGWCC	2 cut(s)	511, 934
BmgBI	CACGTC	2 cut(s)	635, 883
BmgT120I	GGNCC	2 cut(s)	511, 934
BmrFI	CCNGG	5 cut(s)	57, 199, 434, 459, 938
BmsI	GCATC	1 cut(s)	964
BmtI	GCTAGC	1 cut(s)	1008
Bpu10I	CCTNAGC	1 cut(s)	1080
Bpu1102I	GCTNAGC	1 cut(s)	1136
BpuEI	CTTGAG	2 cut(s)	329, 1166
BpuMI	CCSGG	2 cut(s)	57, 459
BsaBI	GATNNNNATC	2 cut(s)	261, 978
BsaJI	CCNNGG	1 cut(s)	55
BsaWI	WCCGGW	1 cut(s)	402
BsaXI	ACNNNNNCTCC	2 cut(s)	783, 813
Bsc4I	CCNNNNNNNGG	1 cut(s)	698
Bse1I	ACTGG	2 cut(s)	1051, 1161
Bse3DI	GCAATG	1 cut(s)	1147
Bse8I	GATNNNNATC	2 cut(s)	261, 978
BseBI	CCWGG	3 cut(s)	199, 434, 938
BseDI	CCNNGG	1 cut(s)	55
BseGI	GGATG	4 cut(s)	229, 571, 598, 679
BseJI	GATNNNNATC	2 cut(s)	261, 978
BseLI	CCNNNNNNNGG	1 cut(s)	698
BseMI	GCAATG	1 cut(s)	1147
BseMII	CTCAG	5 cut(s)	407, 552, 915, 1094, 1127
BseNI	ACTGG	2 cut(s)	1051, 1161
BseSI	GKGCMC	1 cut(s)	432
BseXI	GCAGC	1 cut(s)	898
BsgI	GTGCAG	2 cut(s)	755, 905
BshFI	GGCC	1 cut(s)	421
BsiHKAI	GWGCWC	2 cut(s)	255, 432
BsiSI	CCGG	3 cut(s)	57, 403, 459
BslFI	GGGAC	2 cut(s)	241, 1001
BslI	CCNNNNNNNGG	1 cut(s)	698
BsmAI	GTCTC	1 cut(s)	892
BsmFI	GGGAC	2 cut(s)	241, 1001
BsnI	GGCC	1 cut(s)	421
Bsp1286I	GDGCHC	2 cut(s)	255, 432
Bsp1720I	GCTNAGC	1 cut(s)	1136
BspACI	CCGC	2 cut(s)	769, 977
BspANI	GGCC	1 cut(s)	421
BspCNI	CTCAG	5 cut(s)	408, 553, 916, 1093, 1128
BspHI	TCATGA	1 cut(s)	274
BspMI	ACCTGC	1 cut(s)	1228
BspOI	GCTAGC	1 cut(s)	1008
BspPI	GGATC	7 cut(s)	104, 190, 413, 635, 710, 987, 1221
BsrDI	GCAATG	1 cut(s)	1147
BsrI	ACTGG	2 cut(s)	1051, 1161
BssECI	CCNNGG	1 cut(s)	55
Bst2UI	CCWGG	3 cut(s)	199, 434, 938
Bst4CI	ACNGT	1 cut(s)	1150
Bst6I	CTCTTC	3 cut(s)	384, 819, 890
BstC8I	GCNNGC	2 cut(s)	423, 1006
BstDEI	CTNAG	6 cut(s)	416, 561, 924, 1080, 1136, 1251
BstF5I	GGATG	4 cut(s)	229, 571, 598, 679
BstH2I	RGCGCY	1 cut(s)	1011
BstHHI	GCGC	1 cut(s)	1010
BstMAI	GTCTC	1 cut(s)	892
BstMWI	GCNNNNNNNGC	3 cut(s)	427, 614, 1085
BstNI	CCWGG	3 cut(s)	199, 434, 938
BstNSI	RCATGY	1 cut(s)	1240
BstSCI	CCNGG	5 cut(s)	55, 197, 432, 457, 936
BstSFI	CTRYAG	2 cut(s)	319, 795
BstSLI	GKGCMC	1 cut(s)	432
BstV1I	GCAGC	1 cut(s)	898
BstX2I	RGATCY	5 cut(s)	268, 405, 702, 979, 1228
BstYI	RGATCY	5 cut(s)	268, 405, 702, 979, 1228
BsuRI	GGCC	1 cut(s)	421
BtrI	CACGTC	2 cut(s)	635, 883
BtsCI	GGATG	4 cut(s)	229, 571, 598, 679
BveI	ACCTGC	1 cut(s)	1228
Cac8I	GCNNGC	2 cut(s)	423, 1006
CciI	TCATGA	1 cut(s)	274
CfoI	GCGC	1 cut(s)	1010
Cfr13I	GGNCC	2 cut(s)	511, 934
Csp6I	GTAC	3 cut(s)	34, 241, 1044
CspCI	CAANNNNNGTGG	2 cut(s)	737, 772
CviAII	CATG	5 cut(s)	275, 476, 698, 713, 1237
CviQI	GTAC	3 cut(s)	34, 241, 1044
DdeI	CTNAG	6 cut(s)	416, 561, 924, 1080, 1136, 1251
Eam1104I	CTCTTC	3 cut(s)	384, 819, 890
EarI	CTCTTC	3 cut(s)	384, 819, 890
Ecl136II	GAGCTC	1 cut(s)	253
Eco24I	GRGCYC	1 cut(s)	255
Eco47I	GGWCC	2 cut(s)	511, 934
Eco47III	AGCGCT	1 cut(s)	1009
Eco53kI	GAGCTC	1 cut(s)	253
Eco57I	CTGAAG	4 cut(s)	27, 408, 567, 1185
EcoICRI	GAGCTC	1 cut(s)	253
EcoO109I	RGGNCCY	1 cut(s)	934
EcoRI	GAATTC	1 cut(s)	1160
EcoRII	CCWGG	3 cut(s)	197, 432, 936
EcoT22I	ATGCAT	1 cut(s)	1287
EcoT38I	GRGCYC	1 cut(s)	255
FaeI	CATG	5 cut(s)	278, 479, 701, 716, 1240
FalI	AAGNNNNNCTT	2 cut(s)	129, 161
FaqI	GGGAC	2 cut(s)	241, 1001
FatI	CATG	5 cut(s)	274, 475, 697, 712, 1236
FbaI	TGATCA	2 cut(s)	664, 676
Fnu4HI	GCNGC	2 cut(s)	770, 887
FokI	GGATG	4 cut(s)	236, 578, 605, 686
FriOI	GRGCYC	1 cut(s)	255
Fsp4HI	GCNGC	2 cut(s)	770, 887
FspBI	CTAG	6 cut(s)	231, 237, 366, 602, 1001, 1005
GlaI	GCGC	1 cut(s)	1009
GluI	GCNGC	2 cut(s)	770, 887
HaeII	RGCGCY	1 cut(s)	1011
HaeIII	GGCC	1 cut(s)	421
HapII	CCGG	3 cut(s)	57, 403, 459
HhaI	GCGC	1 cut(s)	1010
Hin1II	CATG	5 cut(s)	278, 479, 701, 716, 1240
Hin6I	GCGC	1 cut(s)	1008
HinP1I	GCGC	1 cut(s)	1008
HincII	GTYRAC	2 cut(s)	781, 1259
HindII	GTYRAC	2 cut(s)	781, 1259
HinfI	GANTC	5 cut(s)	69, 628, 1037, 1106, 1255
HpaI	GTTAAC	1 cut(s)	781
HpaII	CCGG	3 cut(s)	57, 403, 459
HphI	GGTGA	2 cut(s)	23, 701
Hpy166II	GTNNAC	5 cut(s)	14, 430, 781, 1055, 1259
Hpy188I	TCNGA	5 cut(s)	417, 515, 865, 997, 1117
Hpy188III	TCNNGA	6 cut(s)	266, 275, 308, 484, 1082, 1232
Hpy8I	GTNNAC	5 cut(s)	14, 430, 781, 1055, 1259
Hpy99I	CGWCG	1 cut(s)	636
HpyAV	CCTTC	2 cut(s)	173, 583
HpyCH4III	ACNGT	1 cut(s)	1150
HpyCH4IV	ACGT	3 cut(s)	450, 634, 882
HpyCH4V	TGCA	9 cut(s)	29, 430, 527, 608, 697, 736, 886, 1016, 1285
HpyF10VI	GCNNNNNNNGC	3 cut(s)	427, 614, 1085
HpyF3I	CTNAG	6 cut(s)	416, 561, 924, 1080, 1136, 1251
HpySE526I	ACGT	3 cut(s)	450, 634, 882
Hsp92II	CATG	5 cut(s)	278, 479, 701, 716, 1240
HspAI	GCGC	1 cut(s)	1008
Ksp22I	TGATCA	2 cut(s)	664, 676
KspAI	GTTAAC	1 cut(s)	781
LmnI	GCTCC	2 cut(s)	791, 964
Lsp1109I	GCAGC	1 cut(s)	898
LweI	GCATC	1 cut(s)	964
MaeI	CTAG	6 cut(s)	231, 237, 366, 602, 1001, 1005
MaeII	ACGT	3 cut(s)	450, 634, 882
MaeIII	GTNAC	3 cut(s)	332, 376, 878
MboII	GAAGA	9 cut(s)	263, 401, 637, 680, 740, 794, 836, 907, 953
MflI	RGATCY	5 cut(s)	268, 405, 702, 979, 1228
MhlI	GDGCHC	2 cut(s)	255, 432
MluCI	AATT	6 cut(s)	18, 93, 287, 830, 1119, 1160
MlyI	GAGTC	3 cut(s)	63, 1115, 1264
MmeI	TCCRAC	3 cut(s)	668, 896, 1132
Mph1103I	ATGCAT	1 cut(s)	1287
MroXI	GAANNNNTTC	1 cut(s)	1198
MseI	TTAA	9 cut(s)	21, 74, 156, 396, 444, 780, 1023, 1122, 1209
MslI	CAYNNNNRTG	1 cut(s)	1266
MspA1I	CMGCKG	1 cut(s)	425
MspI	CCGG	3 cut(s)	57, 403, 459
MspR9I	CCNGG	5 cut(s)	57, 199, 434, 459, 938
MvaI	CCWGG	3 cut(s)	199, 434, 938
MwoI	GCNNNNNNNGC	3 cut(s)	427, 614, 1085
NciI	CCSGG	2 cut(s)	57, 459
NheI	GCTAGC	1 cut(s)	1004
NlaIII	CATG	5 cut(s)	278, 479, 701, 716, 1240
NmuCI	GTSAC	1 cut(s)	878
NsiI	ATGCAT	1 cut(s)	1287
NspI	RCATGY	1 cut(s)	1240
PagI	TCATGA	1 cut(s)	274
PciI	ACATGT	1 cut(s)	1236
PdmI	GAANNNNTTC	1 cut(s)	1198
PfeI	GAWTC	2 cut(s)	628, 1037
PkrI	GCNGC	2 cut(s)	771, 888
PleI	GAGTC	3 cut(s)	63, 1114, 1263
PpsI	GAGTC	3 cut(s)	63, 1114, 1263
PpuMI	RGGWCCY	1 cut(s)	934
PscI	ACATGT	1 cut(s)	1236
Psp124BI	GAGCTC	1 cut(s)	255
Psp5II	RGGWCCY	1 cut(s)	934
Psp6I	CCWGG	3 cut(s)	197, 432, 936
PspGI	CCWGG	3 cut(s)	197, 432, 936
PspPI	GGNCC	2 cut(s)	511, 934
PspPPI	RGGWCCY	1 cut(s)	934
PsuI	RGATCY	5 cut(s)	268, 405, 702, 979, 1228
PvuII	CAGCTG	1 cut(s)	425
RsaI	GTAC	3 cut(s)	35, 242, 1045
RsaNI	GTAC	3 cut(s)	34, 241, 1044
RseI	CAYNNNNRTG	1 cut(s)	1266
SacI	GAGCTC	1 cut(s)	255
SaqAI	TTAA	9 cut(s)	21, 74, 156, 396, 444, 780, 1023, 1122, 1209
SatI	GCNGC	2 cut(s)	770, 887
Sau96I	GGNCC	2 cut(s)	511, 934
ScaI	AGTACT	1 cut(s)	1045
SchI	GAGTC	3 cut(s)	63, 1115, 1264
ScrFI	CCNGG	5 cut(s)	57, 199, 434, 459, 938
SduI	GDGCHC	2 cut(s)	255, 432
SfaNI	GCATC	1 cut(s)	964
SfcI	CTRYAG	2 cut(s)	319, 795
SinI	GGWCC	2 cut(s)	511, 934
SmiMI	CAYNNNNRTG	1 cut(s)	1266
SmlI	CTYRAG	2 cut(s)	308, 1181
SmoI	CTYRAG	2 cut(s)	308, 1181
SpeI	ACTAGT	1 cut(s)	601
Sse9I	AATT	6 cut(s)	18, 93, 287, 830, 1119, 1160
SsiI	CCGC	2 cut(s)	769, 977
SspI	AATATT	1 cut(s)	860
SspMI	CTAG	6 cut(s)	231, 237, 366, 602, 1001, 1005
SstI	GAGCTC	1 cut(s)	255
StyD4I	CCNGG	5 cut(s)	55, 197, 432, 457, 936
TaaI	ACNGT	1 cut(s)	1150
TaiI	ACGT	3 cut(s)	453, 637, 885
TaqI	TCGA	5 cut(s)	5, 255, 344, 631, 1216
TasI	AATT	6 cut(s)	18, 93, 287, 830, 1119, 1160
TatI	WGTACW	1 cut(s)	1043
TauI	GCSGC	1 cut(s)	772
TfiI	GAWTC	2 cut(s)	628, 1037
Tru1I	TTAA	9 cut(s)	21, 74, 156, 396, 444, 780, 1023, 1122, 1209
Tru9I	TTAA	9 cut(s)	21, 74, 156, 396, 444, 780, 1023, 1122, 1209
TseFI	GTSAC	1 cut(s)	878
TseI	GCWGC	1 cut(s)	886
Tsp45I	GTSAC	1 cut(s)	878
TspDTI	ATGAA	3 cut(s)	263, 612, 741
TspGWI	ACGGA	1 cut(s)	1263
VneI	GTGCAC	1 cut(s)	428
VpaK11BI	GGWCC	2 cut(s)	511, 934
XapI	RAATTY	3 cut(s)	287, 830, 1160
XceI	RCATGY	1 cut(s)	1240
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1153
XmnI	GAANNNNTTC	1 cut(s)	1198
XspI	CTAG	6 cut(s)	231, 237, 366, 602, 1001, 1005
ZrmI	AGTACT	1 cut(s)	1045
Zsp2I	ATGCAT	1 cut(s)	1287

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