Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0005975

Physical Location & Seq

Genomic Coordinates Reverse (-)

6271465 .. 6275278

Gene Structure 3814 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG079100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1368 bp

ATGGAGGGTTTTGGCGGCTTGGGATTCAGTGAAGTAAACAGTGCTGCAAGGAGGAAAAGGAGCAATACATCCCGTCGTCCTCGGAATGAGTCACAGCTTCCTTTGGATTATCGTGACATCTCTTCGCTGTCATCAACTCCTCCTTCAGACGATAATATGATTAAATCTGAGGGAGGAGGATACGTTGAATCTGATGAAGCTTCAAATAATGGTTCTTTTCGAGGCAGTAATGAGCATAGGCATACTGGGATTGATTCCAAAAGGTCGAGCATGGGTGTCCTTGGCCCTGCTAATAGGAAAGGCCCCAGCAAGGATGGGCCTTTTGGTATTGTTTCAGATAATTTAGAGAATAAGAGTACTGTGAAAAAGGTTAAGCTTAAGGTTGGTGGTGTTACACGCACAATTCAGGCCAAGTCCACATCTGATGGTGCATCTAATGTCGGGTTGTCCTCTACAAAATCTTCTCATATTTCAGATGCCCCTCGACCACGGAAGAGGTTGATTCTTCAGGAAAATTCAGATGACAATGGTTCCTTTGGTTCAGACAAGGGAAGTGGGTTACGAGGGGTTGCATCTAAGGATCCATCTAAAAGTGTCTTTGATCTTGGGAAGGATGATAGTTCAAGGGGTAGGATGCCTGAAGAACCTATTCGCAAGAGCAAACGCATCCCTAAGAGACGTGTGCTGGATGGAACAGTTGATGTTGGCGATGATGATGATGATGTGGAAGTTCGATACCTTGAAAAACTCAAAACATCAAAGAATACCCCAGATTGCAGTTTGGACTACCAAGAGGATGAGGAAAGAGCAGTCAGGAAAGAAAGGAAGATTTCAAGGGTGTTGAAGGGAAGTGGTGTTGGCCAGTACAGTGTAGATATGGTAGATTATGGCATATCAAGGTCAGGCAAGGAGGGTAAGAAGTCAAGATCGGGAAGAGTAGTTGATGATACTGATTATGTAGAAGAAGACGAACCTGTTTCTGATGGCGAGCCAGAACTCAAGATCAGGAAGAAGTCAAGAAAGGAGTTTGTTGAGTCATCCTCAGATAATAAGGAGATGACAGTAACTACTCGTCGAAGGGCCCTTCAAACTAGCAAAGATGTCTCTTCCAGCATAGGTGCAAGCGTAATTGAGTTTCCCAATGGGTTGCCTCCTGCGCCGCCAAGAAAGCAAAAAGATGAATTCTGTGCAGTGGAGCAGCAACTGAAGAAAGTTGAGGCTGCTCAGAGACGTAGGATGCAAGTAGAGAAGGCAGCTAGAGAATCTGAGGTTTGGCTTTCTAGTTTCCTTTTGTCTTCCCTAGCAATGCATACGAGTTACTTGGAATGTATTTGTCAAACTTATTCAAAACCTGCTATTATAGGCTGA

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

PAPA-1 zf-HIT

Protein Analysis

455

Amino Acids

50.0

Weight (kDa)

9.18

Isoelectric Point (pI)

50.31

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005975)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G56460 AT1G56460 AT1G56460
fragaria_vesca	FvH4_6g07480 FvH4_6g07480 FvH4_6g07480 FvH4_6g07480
malus_domestica	MD00G1208200.v1.1 MD04G1214800.v1.1 MD04G1215000.v1.1 MD12G1205400.v1.1
prunus_persica	Prupe.6G312500_v2.0.a1
pyrus_communis	pycom12g19330
rosa_chinensis	RchiOBHm_Chr3g0457151 RchiOBHm_Chr3g0457181
rosa_laevigata	RLG00000025244
rosa_multiflora	Rmu_sc0000488.1_g000012
rosa_roxburghii	Rroxscaffold_6G00422130
rosa_rugosa	Rorug03G0019200 Rorug03G0019300 Rorug03G0019300 Rorug03G0019400
rosa_samantha	Rh3AG079100 Rh3BG080800 Rh3CG080900 Rh3DG082800
rosa_wichuraiana	Rw3G006800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	1360
AciI	CCGC	2 cut(s)	15, 1160
AclWI	GGATC	2 cut(s)	575, 588
AcoI	YGGCCR	1 cut(s)	859
AcsI	RAATTY	2 cut(s)	514, 1181
AcuI	CTGAAG	4 cut(s)	129, 491, 660, 1226
AfaI	GTAC	2 cut(s)	358, 866
AfiI	CCNNNNNNNGG	1 cut(s)	310
AflII	CTTAAG	1 cut(s)	377
AflIII	ACRYGT	1 cut(s)	679
AgsI	TTSAA	8 cut(s)	188, 204, 624, 743, 834, 844, 1088, 1347
AjiI	CACGTC	1 cut(s)	680
AluBI	AGCT	4 cut(s)	97, 200, 376, 1256
AluI	AGCT	4 cut(s)	97, 200, 376, 1256
Alw26I	GTCTC	3 cut(s)	670, 1108, 1222
AlwI	GGATC	2 cut(s)	575, 588
AlwNI	CAGNNNCTG	1 cut(s)	1204
AoxI	GGCC	6 cut(s)	283, 301, 317, 408, 859, 1080
ApaI	GGGCCC	1 cut(s)	1084
ApeKI	GCWGC	4 cut(s)	44, 1198, 1220, 1253
ApoI	RAATTY	2 cut(s)	514, 1181
Asp700I	GAANNNNTTC	1 cut(s)	648
AspLEI	GCGC	1 cut(s)	1159
AspS9I	GGNCC	5 cut(s)	284, 302, 317, 1080, 1081
BaeGI	GKGCMC	1 cut(s)	1084
BalI	TGGCCA	1 cut(s)	861
BamHI	GGATCC	1 cut(s)	580
BanII	GRGCYC	1 cut(s)	1084
BbsI	GAAGAC	2 cut(s)	972, 1287
BbvI	GCAGC	4 cut(s)	31, 1207, 1210, 1265
BccI	CCATC	5 cut(s)	308, 419, 592, 683, 977
BciVI	GTATCC	1 cut(s)	173
BcoDI	GTCTC	3 cut(s)	670, 1108, 1222
BfaI	CTAG	4 cut(s)	1092, 1257, 1281, 1301
BfrI	CTTAAG	1 cut(s)	377
BfuAI	ACCTGC	1 cut(s)	1360
BfuI	GTATCC	1 cut(s)	173
BisI	GCNGC	6 cut(s)	16, 45, 1160, 1199, 1221, 1254
BlsI	GCNGC	6 cut(s)	17, 46, 1161, 1200, 1222, 1255
BmcAI	AGTACT	1 cut(s)	358
BmgBI	CACGTC	1 cut(s)	680
BmgT120I	GGNCC	5 cut(s)	284, 302, 317, 1080, 1081
BmiI	GGNNCC	4 cut(s)	304, 532, 582, 1082
BmrI	ACTGGG	1 cut(s)	255
BmsI	GCATC	6 cut(s)	440, 466, 581, 624, 675, 1227
BmuI	ACTGGG	1 cut(s)	255
BpiI	GAAGAC	2 cut(s)	972, 1287
BplI	GAGNNNNNCTC	2 cut(s)	1025, 1057
BpuEI	CTTGAG	1 cut(s)	983
BsaJI	CCNNGG	3 cut(s)	80, 280, 488
BsaXI	ACNNNNNCTCC	2 cut(s)	168, 198
Bsc4I	CCNNNNNNNGG	1 cut(s)	310
Bse1I	ACTGG	2 cut(s)	250, 862
Bse3DI	GCAATG	1 cut(s)	1311
BseDI	CCNNGG	3 cut(s)	80, 280, 488
BseGI	GGATG	9 cut(s)	68, 319, 619, 639, 666, 694, 802, 1037, 1242
BseLI	CCNNNNNNNGG	1 cut(s)	310
BseMI	GCAATG	1 cut(s)	1311
BseMII	CTCAG	4 cut(s)	159, 1056, 1238, 1257
BseNI	ACTGG	2 cut(s)	250, 862
BseRI	GAGGAG	2 cut(s)	129, 189
BseSI	GKGCMC	1 cut(s)	1084
BseXI	GCAGC	4 cut(s)	31, 1207, 1210, 1265
BseYI	CCCAGC	1 cut(s)	305
BsgI	GTGCAG	1 cut(s)	1209
BshFI	GGCC	6 cut(s)	285, 303, 319, 410, 861, 1082
BslI	CCNNNNNNNGG	1 cut(s)	310
BsmAI	GTCTC	3 cut(s)	670, 1108, 1222
BsmBI	CGTCTC	2 cut(s)	670, 1222
BsnI	GGCC	6 cut(s)	285, 303, 319, 410, 861, 1082
Bsp120I	GGGCCC	1 cut(s)	1080
Bsp1286I	GDGCHC	1 cut(s)	1084
Bsp143I	GATC	4 cut(s)	580, 601, 926, 1002
BspACI	CCGC	2 cut(s)	15, 1160
BspANI	GGCC	6 cut(s)	285, 303, 319, 410, 861, 1082
BspCNI	CTCAG	4 cut(s)	160, 1055, 1237, 1258
BspLI	GGNNCC	4 cut(s)	304, 532, 582, 1082
BspMI	ACCTGC	1 cut(s)	1360
BspPI	GGATC	2 cut(s)	575, 588
BspTI	CTTAAG	1 cut(s)	377
BsrDI	GCAATG	1 cut(s)	1311
BsrI	ACTGG	2 cut(s)	250, 862
BssECI	CCNNGG	3 cut(s)	80, 280, 488
BssMI	GATC	4 cut(s)	580, 601, 926, 1002
BssT1I	CCWWGG	1 cut(s)	280
Bst4CI	ACNGT	5 cut(s)	41, 361, 697, 869, 1063
Bst6I	CTCTTC	4 cut(s)	127, 488, 928, 1111
BstAFI	CTTAAG	1 cut(s)	377
BstC8I	GCNNGC	2 cut(s)	989, 1123
BstDEI	CTNAG	6 cut(s)	168, 576, 672, 1042, 1224, 1266
BstDSI	CCRYGG	1 cut(s)	488
BstF5I	GGATG	9 cut(s)	68, 319, 619, 639, 666, 694, 802, 1037, 1242
BstHHI	GCGC	1 cut(s)	1159
BstKTI	GATC	4 cut(s)	583, 604, 929, 1005
BstMAI	GTCTC	3 cut(s)	670, 1108, 1222
BstMBI	GATC	4 cut(s)	580, 601, 926, 1002
BstMWI	GCNNNNNNNGC	2 cut(s)	1156, 1168
BstSLI	GKGCMC	1 cut(s)	1084
BstV1I	GCAGC	4 cut(s)	31, 1207, 1210, 1265
BstV2I	GAAGAC	2 cut(s)	972, 1287
BstX2I	RGATCY	1 cut(s)	580
BstYI	RGATCY	1 cut(s)	580
BsuI	GTATCC	1 cut(s)	173
BsuRI	GGCC	6 cut(s)	285, 303, 319, 410, 861, 1082
BtgI	CCRYGG	1 cut(s)	488
BtgZI	GCGATG	1 cut(s)	723
BtrI	CACGTC	1 cut(s)	680
BtsCI	GGATG	9 cut(s)	68, 319, 619, 639, 666, 694, 802, 1037, 1242
BtsI	GCAGTG	1 cut(s)	1197
BtsIMutI	CAGTG	4 cut(s)	34, 46, 874, 1197
BveI	ACCTGC	1 cut(s)	1360
Cac8I	GCNNGC	2 cut(s)	989, 1123
CaiI	CAGNNNCTG	1 cut(s)	1204
CfoI	GCGC	1 cut(s)	1159
Cfr13I	GGNCC	5 cut(s)	284, 302, 317, 1080, 1081
Csp6I	GTAC	2 cut(s)	357, 865
CspCI	CAANNNNNGTGG	2 cut(s)	535, 570
CviAII	CATG	1 cut(s)	271
CviQI	GTAC	2 cut(s)	357, 865
DdeI	CTNAG	6 cut(s)	168, 576, 672, 1042, 1224, 1266
DpnI	GATC	4 cut(s)	582, 603, 928, 1004
DpnII	GATC	4 cut(s)	580, 601, 926, 1002
EaeI	YGGCCR	1 cut(s)	859
Eam1104I	CTCTTC	4 cut(s)	127, 488, 928, 1111
EarI	CTCTTC	4 cut(s)	127, 488, 928, 1111
Eco130I	CCWWGG	1 cut(s)	280
Eco24I	GRGCYC	1 cut(s)	1084
Eco57I	CTGAAG	4 cut(s)	129, 491, 660, 1226
EcoO109I	RGGNCCY	3 cut(s)	302, 1080, 1081
EcoRI	GAATTC	1 cut(s)	1181
EcoT14I	CCWWGG	1 cut(s)	280
EcoT22I	ATGCAT	1 cut(s)	1311
EcoT38I	GRGCYC	1 cut(s)	1084
ErhI	CCWWGG	1 cut(s)	280
Esp3I	CGTCTC	2 cut(s)	670, 1222
FaeI	CATG	1 cut(s)	274
FatI	CATG	1 cut(s)	270
Fnu4HI	GCNGC	6 cut(s)	16, 45, 1160, 1199, 1221, 1254
FokI	GGATG	9 cut(s)	55, 326, 626, 646, 653, 701, 809, 1024, 1249
FriOI	GRGCYC	1 cut(s)	1084
Fsp4HI	GCNGC	6 cut(s)	16, 45, 1160, 1199, 1221, 1254
FspBI	CTAG	4 cut(s)	1092, 1257, 1281, 1301
GlaI	GCGC	1 cut(s)	1158
GluI	GCNGC	6 cut(s)	16, 45, 1160, 1199, 1221, 1254
GsaI	CCCAGC	1 cut(s)	309
HaeIII	GGCC	6 cut(s)	285, 303, 319, 410, 861, 1082
HhaI	GCGC	1 cut(s)	1159
Hin1II	CATG	1 cut(s)	274
Hin6I	GCGC	1 cut(s)	1157
HinP1I	GCGC	1 cut(s)	1157
HindIII	AAGCTT	2 cut(s)	198, 374
HinfI	GANTC	7 cut(s)	24, 89, 188, 254, 502, 1034, 1262
Hpy166II	GTNNAC	2 cut(s)	37, 417
Hpy188III	TCNNGA	8 cut(s)	113, 509, 814, 924, 930, 1000, 1006, 1017
Hpy8I	GTNNAC	2 cut(s)	37, 417
Hpy99I	CGWCG	2 cut(s)	78, 1077
HpyAV	CCTTC	6 cut(s)	153, 604, 838, 1071, 1094, 1243
HpyCH4III	ACNGT	5 cut(s)	41, 361, 697, 869, 1063
HpyCH4IV	ACGT	3 cut(s)	183, 679, 1231
HpyCH4V	TGCA	8 cut(s)	47, 431, 572, 777, 1121, 1190, 1240, 1309
HpyF10VI	GCNNNNNNNGC	2 cut(s)	1156, 1168
HpyF3I	CTNAG	6 cut(s)	168, 576, 672, 1042, 1224, 1266
HpySE526I	ACGT	3 cut(s)	183, 679, 1231
Hsp92II	CATG	1 cut(s)	274
HspAI	GCGC	1 cut(s)	1157
Kzo9I	GATC	4 cut(s)	580, 601, 926, 1002
LmnI	GCTCC	2 cut(s)	60, 1195
Lsp1109I	GCAGC	4 cut(s)	31, 1207, 1210, 1265
LweI	GCATC	6 cut(s)	440, 466, 581, 624, 675, 1227
MaeI	CTAG	4 cut(s)	1092, 1257, 1281, 1301
MaeII	ACGT	3 cut(s)	183, 679, 1231
MaeIII	GTNAC	6 cut(s)	90, 113, 391, 558, 1063, 1316
MalI	GATC	4 cut(s)	582, 603, 928, 1004
MboI	GATC	4 cut(s)	580, 601, 926, 1002
MflI	RGATCY	1 cut(s)	580
MhlI	GDGCHC	1 cut(s)	1084
MlsI	TGGCCA	1 cut(s)	861
MluCI	AATT	5 cut(s)	340, 402, 514, 1128, 1181
MluNI	TGGCCA	1 cut(s)	861
MlyI	GAGTC	2 cut(s)	98, 1043
Mox20I	TGGCCA	1 cut(s)	861
Mph1103I	ATGCAT	1 cut(s)	1311
MroXI	GAANNNNTTC	1 cut(s)	648
MscI	TGGCCA	1 cut(s)	861
MseI	TTAA	3 cut(s)	162, 372, 378
Msp20I	TGGCCA	1 cut(s)	861
MspCI	CTTAAG	1 cut(s)	377
MwoI	GCNNNNNNNGC	2 cut(s)	1156, 1168
NdeII	GATC	4 cut(s)	580, 601, 926, 1002
NlaIII	CATG	1 cut(s)	274
NlaIV	GGNNCC	4 cut(s)	304, 532, 582, 1082
NmuCI	GTSAC	2 cut(s)	90, 113
NsiI	ATGCAT	1 cut(s)	1311
PdmI	GAANNNNTTC	1 cut(s)	648
PfeI	GAWTC	5 cut(s)	24, 188, 254, 502, 1262
PkrI	GCNGC	6 cut(s)	17, 46, 1161, 1200, 1222, 1255
PleI	GAGTC	2 cut(s)	97, 1042
PpsI	GAGTC	2 cut(s)	97, 1042
PspFI	CCCAGC	1 cut(s)	305
PspN4I	GGNNCC	4 cut(s)	304, 532, 582, 1082
PspOMI	GGGCCC	1 cut(s)	1080
PspPI	GGNCC	5 cut(s)	284, 302, 317, 1080, 1081
PstNI	CAGNNNCTG	1 cut(s)	1204
PsuI	RGATCY	1 cut(s)	580
RsaI	GTAC	2 cut(s)	358, 866
RsaNI	GTAC	2 cut(s)	357, 865
SaqAI	TTAA	3 cut(s)	162, 372, 378
SatI	GCNGC	6 cut(s)	16, 45, 1160, 1199, 1221, 1254
Sau3AI	GATC	4 cut(s)	580, 601, 926, 1002
Sau96I	GGNCC	5 cut(s)	284, 302, 317, 1080, 1081
ScaI	AGTACT	1 cut(s)	358
SchI	GAGTC	2 cut(s)	98, 1043
SduI	GDGCHC	1 cut(s)	1084
SfaNI	GCATC	6 cut(s)	440, 466, 581, 624, 675, 1227
SmlI	CTYRAG	2 cut(s)	377, 998
SmoI	CTYRAG	2 cut(s)	377, 998
Sse9I	AATT	5 cut(s)	340, 402, 514, 1128, 1181
SsiI	CCGC	2 cut(s)	15, 1160
SspMI	CTAG	4 cut(s)	1092, 1257, 1281, 1301
StyI	CCWWGG	1 cut(s)	280
TaaI	ACNGT	5 cut(s)	41, 361, 697, 869, 1063
TaiI	ACGT	3 cut(s)	186, 682, 1234
TaqI	TCGA	5 cut(s)	220, 266, 484, 733, 1075
TasI	AATT	5 cut(s)	340, 402, 514, 1128, 1181
TatI	WGTACW	2 cut(s)	356, 864
TauI	GCSGC	2 cut(s)	18, 1162
TfiI	GAWTC	5 cut(s)	24, 188, 254, 502, 1262
Tru1I	TTAA	3 cut(s)	162, 372, 378
Tru9I	TTAA	3 cut(s)	162, 372, 378
TscAI	CASTG	4 cut(s)	34, 46, 874, 1197
TseFI	GTSAC	2 cut(s)	90, 113
TseI	GCWGC	4 cut(s)	44, 1198, 1220, 1253
Tsp45I	GTSAC	2 cut(s)	90, 113
TspDTI	ATGAA	2 cut(s)	210, 1194
TspGWI	ACGGA	1 cut(s)	505
TspRI	CASTG	4 cut(s)	34, 46, 874, 1197
Vha464I	CTTAAG	1 cut(s)	377
XapI	RAATTY	2 cut(s)	514, 1181
XmnI	GAANNNNTTC	1 cut(s)	648
XspI	CTAG	4 cut(s)	1092, 1257, 1281, 1301
ZrmI	AGTACT	1 cut(s)	358
Zsp2I	ATGCAT	1 cut(s)	1311

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