Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0005190

Physical Location & Seq

Genomic Coordinates Forward (+)

8004709 .. 8009015

Gene Structure 4307 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG100300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1833 bp

ATGGAGAAGGTGAAGCTAAGGAATAATGGAGATGTTCCAAACTACTCTGATCCAGACAATTTTACTCTTGAAATTAGACATGGGGGTGTATTTTCTAGTGGAGAGTATGTGGGTGGTTCTGTATGTTGGGCAGACAACTATGACGTTAACTTATTTAGCAAGTGGGACTTGGCAGTAATTGCTAGAAATCTTGGATATGATATTGAGAGAATTCAATACTTTTTCTACCATAAAACTGATGGTTTGGTAGAGATAGATAGTGACATAAGGGTTCTAGAGTGTTCACTGAACCAATCCACTAGAAAAGTTTCTGTTGCCTATATTAGTGATTGCATAGTTTTGGATGAAACTCTTGCATTTAATGAAGAATCACAAGTTACTCATCATGTTCAAGCTGACAATGAAGCGGGTGCATATAGGGATGATAAAGCGGATTATGATAGAGGACTTGATGTTAATGTCTTGGCAGATAATGATTTGGACGGAGATTCCAGCAATGATAAAGATGTACTAGATCCTGAAGATGCACAGTGGTTTGTGGATGAAGAATATGTTCAAAGCGATGAAGATATGAGGCAGTTCAAGAGTTGTGTTGTAGATGAAATTGAAGTTGATCATCATGTGGAACCTGGAGAGGAGTCTGATGACTGGGCTATGGACAGCGATGATCTTGAGAGCCTTGATGAGAGTTCAAGTGATGAGGAGGTTAGTGAGCCTGTTAAGTACATGAAGCCTAAGAAAAAGCAACCAAAGTTCAAGCAGTATAGAAGAGATACTGACTTACGGGATCCATACTTCAAACTGGGTCTGGAGTTTCCAACTATGGCACAATGTAGGGAGGCCATAAGAGAATTATCTATCAAATCTGGAAGGCCACTAAGTTTTGACAAAAATGATTCTGACAAGGTTATAGTGAAATGTAAAGGACAATGTAAGGGAAGTTGTCCATTCAAAATATATGCATCTGTGGTTGGGAGTGGTCCTACTGTGAGGGTCAAGACATATGAGCCATTGCATCACTGCGGGAGGTCAAAAAAAATAAAGCATGTTACTTCTACTTGGATAGCAGACAGGTTTGATGAGGTCTTCAGATCCAATCCCAAAATAAAACCTAGAGACTTTATTCGAATGGTGGCTAAGCAGTACGGGATTGATGTTACACTTGATCAGTTTTATAAGGCCAAGGAAAAAGCTAAGAGGAGGATACAAGGTGGCATTCAGGAGCAATATGCGAGAGGACAAGCACTAGAACCTCCTCCTCATGTTCCAGTGAGCGAAAATATGTACAAGGCAAGTGGAACAGCAAGAGGAAGGGCTAGAGGAACCGGCACAAATAGAGGAAGAGGTATTGGAAATTCAATTATGACGGAAGAAGCACAATTTGGACAAGGAACAAGAGGACAAGGAAGACATGGTGTTCAACATGTTAGAGTTGGGGGGACTAGAGGAGGAAGAGGCCAATTTGTTGCTCCAACAAGAGAAAGAGGACAGTTTGAAAGCTTTATTGGAAGGTCACAATCTACAAGTTTCGGTACTAGAGGAGGAGGACAAACATTTGCAAGTGCCGGAAGAGGAAGAAGCCAATTCATTGCTCCAACAAGAGGAAAAGGGCAACCTACAAGCTTTGGTAATGGTGGAGGACAAGCTCTCCCAGGTATTGAAAGAGGAAGGGGACAATATGTCAATCATGCCACTCGTATAACTCAAGTGACAATGCATTCTACAATCAGTACTGAAGCTACCGCATCTCAACCAATTTCTAAAGCTAGAAGTAGTGAATCAAGTACAAGGCATGTTACTCCTGCCAACAGTAACACACATTGGAAGCTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DBD_Tnp_Mut MULE SWIM

Protein Analysis

610

Amino Acids

68.14

Weight (kDa)

6.38

Isoelectric Point (pI)

36.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PB1-like	PF26130	19 - 93	2.8e-08	PB1-like domain
DBD_Tnp_Mut	PF03108	267 - 325	1.5e-11	MuDR family transposase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005190)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g13324
prunus_persica	Prupe.6G164700_v2.0.a1 Prupe.6G182100_v2.0.a1
pyrus_communis	pycom06g06460 pycom15g24790 pycom15g27610
rosa_chinensis	RchiOBHm_Chr5g0080361
rosa_laevigata	RLG00000018542 RLG00000036161 RLG00000036162
rosa_multiflora	Rmu_sc0007310.1_g000012
rosa_roxburghii	Rroxscaffold_4G00288540 Rroxscaffold_4G00288590 Rroxscaffold_4G00323350
rosa_rugosa	Rorug01G0105500 Rorug01G0166300 Rorug02G0169100
rosa_samantha	Rh1AG080500 Rh1AG329900 Rh1BG311500 Rh1DG137800 Rh1DG343300 Rh2AG387800 Rh2CG375100 Rh3DG100300 Rh5BG152800 Rh5DG277500 Rh6AG151900
rosa_wichuraiana	Rw1G029250 Rw5G024840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1176
AciI	CCGC	4 cut(s)	407, 431, 1023, 1743
AclWI	GGATC	5 cut(s)	44, 509, 782, 795, 1086
AcsI	RAATTY	2 cut(s)	210, 1354
AcuI	CTGAAG	3 cut(s)	540, 1072, 1755
AfaI	GTAC	7 cut(s)	510, 725, 1145, 1286, 1534, 1732, 1786
AfiI	CCNNNNNNNGG	1 cut(s)	1601
AflIII	ACRYGT	1 cut(s)	1423
AhdI	GACNNNNNGTC	1 cut(s)	1679
AjnI	CCWGG	2 cut(s)	628, 1651
AjuI	GAANNNNNNNTTGG	4 cut(s)	1365, 1397, 1488, 1520
AluBI	AGCT	9 cut(s)	16, 395, 1193, 1500, 1623, 1646, 1739, 1766, 1828
AluI	AGCT	9 cut(s)	16, 395, 1193, 1500, 1623, 1646, 1739, 1766, 1828
Alw26I	GTCTC	1 cut(s)	1110
AlwI	GGATC	5 cut(s)	44, 509, 782, 795, 1086
AoxI	GGCC	4 cut(s)	840, 872, 1179, 1456
ApoI	RAATTY	2 cut(s)	210, 1354
Asp700I	GAANNNNTTC	2 cut(s)	307, 552
AspS9I	GGNCC	1 cut(s)	980
AsuHPI	GGTGA	1 cut(s)	22
AsuII	TTCGAA	1 cut(s)	1126
AvaII	GGWCC	1 cut(s)	980
BamHI	GGATCC	1 cut(s)	787
BbsI	GAAGAC	2 cut(s)	1078, 1414
BccI	CCATC	1 cut(s)	233
BciT130I	CCWGG	2 cut(s)	630, 1653
BciVI	GTATCC	1 cut(s)	1197
BclI	TGATCA	2 cut(s)	613, 1165
BcoDI	GTCTC	1 cut(s)	1110
BfmI	CTRYAG	1 cut(s)	1829
BfuI	GTATCC	1 cut(s)	1197
BlpI	GCTNAGC	1 cut(s)	1137
BmcAI	AGTACT	1 cut(s)	1732
Bme1390I	CCNGG	2 cut(s)	630, 1653
Bme18I	GGWCC	1 cut(s)	980
BmeRI	GACNNNNNGTC	1 cut(s)	1679
BmgT120I	GGNCC	1 cut(s)	980
BmiI	GGNNCC	3 cut(s)	627, 789, 1324
BmrFI	CCNGG	2 cut(s)	630, 1653
BmrI	ACTGGG	2 cut(s)	658, 812
BmsI	GCATC	4 cut(s)	514, 971, 1024, 1754
BmuI	ACTGGG	2 cut(s)	658, 812
BpiI	GAAGAC	2 cut(s)	1078, 1414
BpmI	CTGGAG	2 cut(s)	651, 830
Bpu10I	CCTNAGC	1 cut(s)	17
Bpu1102I	GCTNAGC	1 cut(s)	1137
Bpu14I	TTCGAA	1 cut(s)	1126
BpuEI	CTTGAG	2 cut(s)	692, 1689
BsaJI	CCNNGG	2 cut(s)	1182, 1651
BsaXI	ACNNNNNCTCC	4 cut(s)	93, 123, 1632, 1662
Bsc4I	CCNNNNNNNGG	1 cut(s)	1601
Bse118I	RCCGGY	1 cut(s)	1325
Bse1I	ACTGG	3 cut(s)	653, 807, 1268
Bse3DI	GCAATG	3 cut(s)	502, 1010, 1587
BseBI	CCWGG	2 cut(s)	630, 1653
BseDI	CCNNGG	2 cut(s)	1182, 1651
BseGI	GGATG	3 cut(s)	349, 427, 547
BseLI	CCNNNNNNNGG	1 cut(s)	1601
BseMI	GCAATG	3 cut(s)	502, 1010, 1587
BseNI	ACTGG	3 cut(s)	653, 807, 1268
BseRI	GAGGAG	8 cut(s)	650, 716, 1213, 1245, 1248, 1461, 1554, 1557
BshFI	GGCC	4 cut(s)	842, 874, 1181, 1458
BsiSI	CCGG	2 cut(s)	1326, 1566
BslFI	GGGAC	3 cut(s)	179, 1453, 1686
BslI	CCNNNNNNNGG	1 cut(s)	1601
BsmAI	GTCTC	1 cut(s)	1110
BsmFI	GGGAC	3 cut(s)	179, 1453, 1686
BsmI	GAATGC	2 cut(s)	1215, 1717
BsnI	GGCC	4 cut(s)	842, 874, 1181, 1458
Bsp119I	TTCGAA	1 cut(s)	1126
Bsp1407I	TGTACA	1 cut(s)	1284
Bsp143I	GATC	7 cut(s)	49, 514, 613, 667, 787, 1091, 1165
Bsp1720I	GCTNAGC	1 cut(s)	1137
BspACI	CCGC	4 cut(s)	407, 431, 1023, 1743
BspANI	GGCC	4 cut(s)	842, 874, 1181, 1458
BspLI	GGNNCC	3 cut(s)	627, 789, 1324
BspPI	GGATC	5 cut(s)	44, 509, 782, 795, 1086
BspT104I	TTCGAA	1 cut(s)	1126
BsrDI	GCAATG	3 cut(s)	502, 1010, 1587
BsrFI	RCCGGY	1 cut(s)	1325
BsrGI	TGTACA	1 cut(s)	1284
BsrI	ACTGG	3 cut(s)	653, 807, 1268
BssAI	RCCGGY	1 cut(s)	1325
BssECI	CCNNGG	2 cut(s)	1182, 1651
BssMI	GATC	7 cut(s)	49, 514, 613, 667, 787, 1091, 1165
BssT1I	CCWWGG	1 cut(s)	1182
Bst2UI	CCWGG	2 cut(s)	630, 1653
Bst4CI	ACNGT	4 cut(s)	531, 988, 1491, 1811
Bst6I	CTCTTC	4 cut(s)	763, 1336, 1447, 1564
BstAPI	GCANNNNNTGC	1 cut(s)	179
BstAUI	TGTACA	1 cut(s)	1284
BstBI	TTCGAA	1 cut(s)	1126
BstDEI	CTNAG	5 cut(s)	17, 735, 878, 1137, 1194
BstF5I	GGATG	3 cut(s)	349, 427, 547
BstKTI	GATC	7 cut(s)	52, 517, 616, 670, 790, 1094, 1168
BstMAI	GTCTC	1 cut(s)	1110
BstMBI	GATC	7 cut(s)	49, 514, 613, 667, 787, 1091, 1165
BstMWI	GCNNNNNNNGC	1 cut(s)	179
BstNI	CCWGG	2 cut(s)	630, 1653
BstNSI	RCATGY	3 cut(s)	1049, 1427, 1796
BstSCI	CCNGG	2 cut(s)	628, 1651
BstSFI	CTRYAG	1 cut(s)	1829
BstV2I	GAAGAC	2 cut(s)	1078, 1414
BstX2I	RGATCY	3 cut(s)	514, 787, 1091
BstYI	RGATCY	3 cut(s)	514, 787, 1091
BsuI	GTATCC	1 cut(s)	1197
BsuRI	GGCC	4 cut(s)	842, 874, 1181, 1458
BtgZI	GCGATG	2 cut(s)	576, 678
BtsCI	GGATG	3 cut(s)	349, 427, 547
BtsI	GCAGTG	1 cut(s)	1018
BtsIMutI	CAGTG	4 cut(s)	284, 536, 1018, 1275
Cfr10I	RCCGGY	1 cut(s)	1325
Cfr13I	GGNCC	1 cut(s)	980
Csp6I	GTAC	7 cut(s)	509, 724, 1144, 1285, 1533, 1731, 1785
CspCI	CAANNNNNGTGG	2 cut(s)	1276, 1311
CviQI	GTAC	7 cut(s)	509, 724, 1144, 1285, 1533, 1731, 1785
DdeI	CTNAG	5 cut(s)	17, 735, 878, 1137, 1194
DpnI	GATC	7 cut(s)	51, 516, 615, 669, 789, 1093, 1167
DpnII	GATC	7 cut(s)	49, 514, 613, 667, 787, 1091, 1165
DriI	GACNNNNNGTC	1 cut(s)	1679
Eam1104I	CTCTTC	4 cut(s)	763, 1336, 1447, 1564
Eam1105I	GACNNNNNGTC	1 cut(s)	1679
EarI	CTCTTC	4 cut(s)	763, 1336, 1447, 1564
Eco130I	CCWWGG	1 cut(s)	1182
Eco47I	GGWCC	1 cut(s)	980
Eco57I	CTGAAG	3 cut(s)	540, 1072, 1755
EcoRI	GAATTC	1 cut(s)	210
EcoRII	CCWGG	2 cut(s)	628, 1651
EcoT14I	CCWWGG	1 cut(s)	1182
EcoT22I	ATGCAT	2 cut(s)	964, 1719
ErhI	CCWWGG	1 cut(s)	1182
FalI	AAGNNNNNCTT	2 cut(s)	152, 184
FaqI	GGGAC	3 cut(s)	179, 1453, 1686
FauI	CCCGC	2 cut(s)	400, 1016
FauNDI	CATATG	1 cut(s)	1003
FbaI	TGATCA	2 cut(s)	613, 1165
FokI	GGATG	3 cut(s)	356, 434, 554
GsuI	CTGGAG	2 cut(s)	651, 830
HaeIII	GGCC	4 cut(s)	842, 874, 1181, 1458
HapII	CCGG	2 cut(s)	1326, 1566
HincII	GTYRAC	1 cut(s)	148
HindII	GTYRAC	1 cut(s)	148
HindIII	AAGCTT	2 cut(s)	1498, 1621
HinfI	GANTC	5 cut(s)	368, 488, 638, 896, 1778
HpaI	GTTAAC	1 cut(s)	148
HpaII	CCGG	2 cut(s)	1326, 1566
HphI	GGTGA	1 cut(s)	22
Hpy166II	GTNNAC	2 cut(s)	148, 284
Hpy188I	TCNGA	4 cut(s)	49, 643, 901, 1091
Hpy8I	GTNNAC	2 cut(s)	148, 284
HpyAV	CCTTC	4 cut(s)	864, 1305, 1503, 1662
HpyCH4III	ACNGT	4 cut(s)	531, 988, 1491, 1811
HpyCH4IV	ACGT	1 cut(s)	144
HpyCH4V	TGCA	8 cut(s)	333, 356, 413, 527, 962, 1015, 1559, 1717
HpyF10VI	GCNNNNNNNGC	1 cut(s)	179
HpyF3I	CTNAG	5 cut(s)	17, 735, 878, 1137, 1194
HpySE526I	ACGT	1 cut(s)	144
Ksp22I	TGATCA	2 cut(s)	613, 1165
KspAI	GTTAAC	1 cut(s)	148
Kzo9I	GATC	7 cut(s)	49, 514, 613, 667, 787, 1091, 1165
LmnI	GCTCC	3 cut(s)	1222, 1474, 1597
LweI	GCATC	4 cut(s)	514, 971, 1024, 1754
MaeII	ACGT	1 cut(s)	144
MaeIII	GTNAC	8 cut(s)	260, 376, 1048, 1156, 1512, 1708, 1795, 1811
MalI	GATC	7 cut(s)	51, 516, 615, 669, 789, 1093, 1167
MboI	GATC	7 cut(s)	49, 514, 613, 667, 787, 1091, 1165
MflI	RGATCY	3 cut(s)	514, 787, 1091
MlyI	GAGTC	1 cut(s)	647
MmeI	TCCRAC	3 cut(s)	842, 1496, 1619
Mph1103I	ATGCAT	2 cut(s)	964, 1719
MroXI	GAANNNNTTC	2 cut(s)	307, 552
MseI	TTAA	4 cut(s)	147, 360, 456, 720
MslI	CAYNNNNRTG	1 cut(s)	84
MspI	CCGG	2 cut(s)	1326, 1566
MspR9I	CCNGG	2 cut(s)	630, 1653
Mva1269I	GAATGC	2 cut(s)	1215, 1717
MvaI	CCWGG	2 cut(s)	630, 1653
MwoI	GCNNNNNNNGC	1 cut(s)	179
NdeI	CATATG	1 cut(s)	1003
NdeII	GATC	7 cut(s)	49, 514, 613, 667, 787, 1091, 1165
NlaIV	GGNNCC	3 cut(s)	627, 789, 1324
NmuCI	GTSAC	3 cut(s)	260, 1512, 1708
NsiI	ATGCAT	2 cut(s)	964, 1719
NspI	RCATGY	3 cut(s)	1049, 1427, 1796
NspV	TTCGAA	1 cut(s)	1126
PciI	ACATGT	1 cut(s)	1423
PctI	GAATGC	2 cut(s)	1215, 1717
PdmI	GAANNNNTTC	2 cut(s)	307, 552
PfeI	GAWTC	4 cut(s)	368, 488, 896, 1778
PleI	GAGTC	1 cut(s)	646
PpsI	GAGTC	1 cut(s)	646
PscI	ACATGT	1 cut(s)	1423
PsiI	TTATAA	1 cut(s)	1176
Psp6I	CCWGG	2 cut(s)	628, 1651
PspGI	CCWGG	2 cut(s)	628, 1651
PspN4I	GGNNCC	3 cut(s)	627, 789, 1324
PspPI	GGNCC	1 cut(s)	980
PsuI	RGATCY	3 cut(s)	514, 787, 1091
RsaI	GTAC	7 cut(s)	510, 725, 1145, 1286, 1534, 1732, 1786
RsaNI	GTAC	7 cut(s)	509, 724, 1144, 1285, 1533, 1731, 1785
RseI	CAYNNNNRTG	1 cut(s)	84
SaqAI	TTAA	4 cut(s)	147, 360, 456, 720
Sau3AI	GATC	7 cut(s)	49, 514, 613, 667, 787, 1091, 1165
Sau96I	GGNCC	1 cut(s)	980
ScaI	AGTACT	1 cut(s)	1732
SchI	GAGTC	1 cut(s)	647
ScrFI	CCNGG	2 cut(s)	630, 1653
SfaNI	GCATC	4 cut(s)	514, 971, 1024, 1754
SfcI	CTRYAG	1 cut(s)	1829
SfuI	TTCGAA	1 cut(s)	1126
SinI	GGWCC	1 cut(s)	980
SmiMI	CAYNNNNRTG	1 cut(s)	84
SmlI	CTYRAG	2 cut(s)	671, 1704
SmoI	CTYRAG	2 cut(s)	671, 1704
SsiI	CCGC	4 cut(s)	407, 431, 1023, 1743
StyD4I	CCNGG	2 cut(s)	628, 1651
StyI	CCWWGG	1 cut(s)	1182
TaaI	ACNGT	4 cut(s)	531, 988, 1491, 1811
TaiI	ACGT	1 cut(s)	147
TaqI	TCGA	1 cut(s)	1126
TatI	WGTACW	5 cut(s)	508, 723, 1284, 1730, 1784
TfiI	GAWTC	4 cut(s)	368, 488, 896, 1778
Tru1I	TTAA	4 cut(s)	147, 360, 456, 720
Tru9I	TTAA	4 cut(s)	147, 360, 456, 720
TscAI	CASTG	4 cut(s)	291, 536, 1025, 1275
TseFI	GTSAC	3 cut(s)	260, 1512, 1708
Tsp45I	GTSAC	3 cut(s)	260, 1512, 1708
TspDTI	ATGAA	8 cut(s)	360, 378, 417, 558, 579, 615, 743, 1576
TspGWI	ACGGA	2 cut(s)	498, 1382
TspRI	CASTG	4 cut(s)	291, 536, 1025, 1275
VpaK11BI	GGWCC	1 cut(s)	980
XapI	RAATTY	2 cut(s)	210, 1354
XbaI	TCTAGA	1 cut(s)	274
XceI	RCATGY	3 cut(s)	1049, 1427, 1796
XcmI	CCANNNNNNNNNTGG	1 cut(s)	236
XmnI	GAANNNNTTC	2 cut(s)	307, 552
ZrmI	AGTACT	1 cut(s)	1732
Zsp2I	ATGCAT	2 cut(s)	964, 1719

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