Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0001993

Physical Location & Seq

Genomic Coordinates Forward (+)

58950598 .. 58954840

Gene Structure 4243 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG418000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1323 bp

ATGGATGGTAGAAGACATAAGCGAAGCGGTGTTGACCATAACAACAAGCTCAATCTCGTATGGAGACCAGTCAGTAAACTCAGTACACAAGTCAGTTCCAATGAAGAATGCTCAGTAGTGGAGGTTACGGATAAGCTGGAAGAAGAAGTGCACTCTTGTTCGTCTACCAAGATTTCAAGTGCTCAAGATGACATAGAGATGGCTTCAGCAGTTACTGAAGCAACTAAGCTCACTACTTGTTCAAGTGCATCGCAAGATAATGAAGAAGATAAAGGTTTAGAAGGAGAAACAGTGCTTTTGACCGAAAAGCATTCAATTTCAGTTGAGGTTGGGGCTTCTTTGCATCGCTTTATCAGAGGAAAAGGAGGATCTACTCAGAAAATGATTGAAGATGAGACAGGAGTGAAGATTAAAATCCCTTTGTCAAACAAAGAGGATTCCATTATTATTGAAGGCCTCTCAAGTGAAAGTGTATCTAGAGCTTCAGAGAAGATGCAGGCTATAATTGATGAGGCAGTGAAAAGCCCAAGTCTTGATTACTCTCACTTCATTTCACTTCCCTTAGCAATACATCCTGAATTAGTTGATAAGCTTGTCAACTTTCAGAACTCCATTCTAGGAATTACTGATTCTTCCCAGGGTGAGAATCTGGACGGTGGTTCGAATGAAGATGATTCCAATAATGAAGATGAAGATCAAAAGTTAAAGAAAGGATCTGATGTTGCAGTTGAACTTAAAGCTGAACCATCAAAGTCTCCTACCCTATCTGACTTGGGAATTGAGAAATCAATCTTTATTAAACCGAAAACATTTCACCTAACTGTGCTCATGTTGAAGTTGTGGAACAAGGACAGAGTTCATGCAGCTACTGAGGTTTTGCAGAGCATCTCTTCGGAAGTGATGGAAGCCTTAGATAATCGCGCTCTATCCATAAGACTCAAGGGACTGAATTGTATGAGAGGTTCTTTTGCCAAAGCTGGTGTTCTATATGCGCCCGTTGAAGAAATTGGCAATGAGGGCCGACTTATGCGTGCCTGTCAAGTCATTATTGATGCATTTGTTAAAGCAGGGCTTGTTCTAGAGAAAGATGCAAATCAGAAATTAAAGCTCCATGCAACGGTGATGAAGGCAAGGCATGGACAAAGGAATCAAAAGAGAAAATTTAGTACCTTTGATGCCCGTGGCATATATAAGCAGTATGGATCCGAGGAATGGGGAGAGTATCTTATCCGTGAAGCTCATCTTTCACAAAGGTTTGTGTACGATGACAAGGGATATTATCATTGTTGTGCTTCTATACCTTTTCCAGAAATATGCAAATAA

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

AKAP7_NLS Auxin_canalis KH_1 PH_2

Protein Analysis

440

Amino Acids

48.75

Weight (kDa)

5.72

Isoelectric Point (pI)

45.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KH_1	PF00013	106 - 166	8.9e-12	KH domain
AKAP7_NLS	PF10469	180 - 435	1.7e-53	AKAP7 2'5' RNA ligase-like 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

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

Orthologous Genes (Group: OG0001993)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230 AT3G16230
fragaria_vesca	FvH4_6g31950 FvH4_6g31960 FvH4_6g31960 FvH4_6g31960
malus_domestica	MD09G1207800.v1.1 MD17G1188900.v1.1
prunus_persica	Prupe.3G063900_v2.0.a1 Prupe.3G063900_v2.0.a1
pyrus_communis	pycom09g12390 pycom17g19720
rosa_chinensis	RchiOBHm_Chr2g0139371 RchiOBHm_Chr2g0139461
rosa_laevigata	RLG00000019809 RLG00000019812
rosa_multiflora	Rmu_co8444677.1_g000001 Rmu_co8444769.1_g000001 Rmu_sc0001983.1_g000003
rosa_roxburghii	Rroxscaffold_2G00105420 Rroxscaffold_2G00105430
rosa_rugosa	Rorug02G0358100
rosa_samantha	Rh2AG407200 Rh2AG407400 Rh2BG417500 Rh2BG418000 Rh2CG393200 Rh2CG393400 Rh2DG426600 Rh2DG426800
rosa_wichuraiana	Rw2G032990 Rw2G033000 Rw2G033250 Rw2G033260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	164
AccII	CGCG	1 cut(s)	921
AciI	CCGC	1 cut(s)	27
AclWI	GGATC	4 cut(s)	376, 721, 1197, 1210
AcsI	RAATTY	1 cut(s)	1160
AcuI	CTGAAG	3 cut(s)	189, 237, 468
AfaI	GTAC	3 cut(s)	85, 1168, 1262
AfiI	CCNNNNNNNGG	2 cut(s)	1117, 1212
AgsI	TTSAA	8 cut(s)	177, 243, 315, 389, 452, 731, 835, 1001
AjnI	CCWGG	1 cut(s)	636
Alw21I	GWGCWC	3 cut(s)	153, 184, 828
Alw26I	GTCTC	3 cut(s)	58, 389, 759
Alw44I	GTGCAC	1 cut(s)	149
AlwI	GGATC	4 cut(s)	376, 721, 1197, 1210
AlwNI	CAGNNNCTG	2 cut(s)	215, 869
AoxI	GGCC	2 cut(s)	454, 1018
ApaLI	GTGCAC	1 cut(s)	149
ApeKI	GCWGC	1 cut(s)	863
ApoI	RAATTY	1 cut(s)	1160
AspLEI	GCGC	2 cut(s)	923, 994
AspS9I	GGNCC	1 cut(s)	1018
AsuHPI	GGTGA	3 cut(s)	653, 806, 1132
AsuII	TTCGAA	1 cut(s)	662
BaeGI	GKGCMC	1 cut(s)	153
BamHI	GGATCC	1 cut(s)	1202
BbsI	GAAGAC	1 cut(s)	19
Bbv12I	GWGCWC	3 cut(s)	153, 184, 828
BbvI	GCAGC	1 cut(s)	875
BccI	CCATC	3 cut(s)	193, 754, 895
BciT130I	CCWGG	1 cut(s)	638
BcoDI	GTCTC	3 cut(s)	58, 389, 759
BfaI	CTAG	3 cut(s)	477, 617, 1079
BisI	GCNGC	1 cut(s)	864
BlsI	GCNGC	1 cut(s)	865
Bme1390I	CCNGG	1 cut(s)	638
BmgT120I	GGNCC	1 cut(s)	1018
BmiI	GGNNCC	1 cut(s)	1204
BmrFI	CCNGG	1 cut(s)	638
BmsI	GCATC	7 cut(s)	257, 352, 483, 894, 1042, 1078, 1165
BpiI	GAAGAC	1 cut(s)	19
Bpu10I	CCTNAGC	1 cut(s)	562
Bpu14I	TTCGAA	1 cut(s)	662
BpuEI	CTTGAG	3 cut(s)	168, 445, 923
BsaBI	GATNNNNATC	3 cut(s)	413, 693, 1092
BsaI	GGTCTC	1 cut(s)	58
BsaJI	CCNNGG	4 cut(s)	636, 637, 1180, 1206
BsaXI	ACNNNNNCTCC	2 cut(s)	276, 306
Bsc4I	CCNNNNNNNGG	2 cut(s)	1117, 1212
Bse1I	ACTGG	1 cut(s)	68
Bse3DI	GCAATG	1 cut(s)	1018
Bse8I	GATNNNNATC	3 cut(s)	413, 693, 1092
BseBI	CCWGG	1 cut(s)	638
BseDI	CCNNGG	4 cut(s)	636, 637, 1180, 1206
BseGI	GGATG	2 cut(s)	10, 571
BseJI	GATNNNNATC	3 cut(s)	413, 693, 1092
BseLI	CCNNNNNNNGG	2 cut(s)	1117, 1212
BseMI	GCAATG	1 cut(s)	1018
BseMII	CTCAG	4 cut(s)	94, 126, 389, 861
BseNI	ACTGG	1 cut(s)	68
BseSI	GKGCMC	1 cut(s)	153
BseXI	GCAGC	1 cut(s)	875
Bsh1236I	CGCG	1 cut(s)	921
BshFI	GGCC	2 cut(s)	456, 1020
BsiHKAI	GWGCWC	3 cut(s)	153, 184, 828
BslFI	GGGAC	1 cut(s)	957
BslI	CCNNNNNNNGG	2 cut(s)	1117, 1212
BsmAI	GTCTC	3 cut(s)	58, 389, 759
BsmFI	GGGAC	1 cut(s)	957
BsmI	GAATGC	2 cut(s)	113, 310
BsnI	GGCC	2 cut(s)	456, 1020
Bso31I	GGTCTC	1 cut(s)	58
Bsp119I	TTCGAA	1 cut(s)	662
Bsp1286I	GDGCHC	3 cut(s)	153, 184, 828
Bsp143I	GATC	4 cut(s)	368, 694, 713, 1202
BspACI	CCGC	1 cut(s)	27
BspANI	GGCC	2 cut(s)	456, 1020
BspCNI	CTCAG	4 cut(s)	93, 125, 388, 862
BspFNI	CGCG	1 cut(s)	921
BspLI	GGNNCC	1 cut(s)	1204
BspPI	GGATC	4 cut(s)	376, 721, 1197, 1210
BspT104I	TTCGAA	1 cut(s)	662
BspTNI	GGTCTC	1 cut(s)	58
BsrDI	GCAATG	1 cut(s)	1018
BsrI	ACTGG	1 cut(s)	68
BssECI	CCNNGG	4 cut(s)	636, 637, 1180, 1206
BssMI	GATC	4 cut(s)	368, 694, 713, 1202
Bst2UI	CCWGG	1 cut(s)	638
Bst4CI	ACNGT	4 cut(s)	292, 656, 823, 1120
Bst6I	CTCTTC	1 cut(s)	895
BstBI	TTCGAA	1 cut(s)	662
BstC8I	GCNNGC	2 cut(s)	498, 1032
BstDEI	CTNAG	7 cut(s)	80, 112, 225, 375, 562, 870, 910
BstDSI	CCRYGG	1 cut(s)	1180
BstF5I	GGATG	2 cut(s)	10, 571
BstFNI	CGCG	1 cut(s)	921
BstHHI	GCGC	2 cut(s)	923, 994
BstKTI	GATC	4 cut(s)	371, 697, 716, 1205
BstMAI	GTCTC	3 cut(s)	58, 389, 759
BstMBI	GATC	4 cut(s)	368, 694, 713, 1202
BstMWI	GCNNNNNNNGC	1 cut(s)	1017
BstNI	CCWGG	1 cut(s)	638
BstSCI	CCNGG	1 cut(s)	636
BstSLI	GKGCMC	1 cut(s)	153
BstUI	CGCG	1 cut(s)	921
BstV1I	GCAGC	1 cut(s)	875
BstV2I	GAAGAC	1 cut(s)	19
BstX2I	RGATCY	3 cut(s)	368, 713, 1202
BstYI	RGATCY	3 cut(s)	368, 713, 1202
BsuRI	GGCC	2 cut(s)	456, 1020
BtgI	CCRYGG	1 cut(s)	1180
BtgZI	GCGATG	2 cut(s)	234, 329
BtsCI	GGATG	2 cut(s)	10, 571
BtsI	GCAGTG	1 cut(s)	522
BtsIMutI	CAGTG	2 cut(s)	297, 522
Cac8I	GCNNGC	2 cut(s)	498, 1032
CaiI	CAGNNNCTG	2 cut(s)	215, 869
CfoI	GCGC	2 cut(s)	923, 994
Cfr13I	GGNCC	1 cut(s)	1018
Csp6I	GTAC	3 cut(s)	84, 1167, 1261
CviAII	CATG	4 cut(s)	829, 860, 1112, 1136
CviQI	GTAC	3 cut(s)	84, 1167, 1261
DdeI	CTNAG	7 cut(s)	80, 112, 225, 375, 562, 870, 910
DpnI	GATC	4 cut(s)	370, 696, 715, 1204
DpnII	GATC	4 cut(s)	368, 694, 713, 1202
Eam1104I	CTCTTC	1 cut(s)	895
EarI	CTCTTC	1 cut(s)	895
Eco147I	AGGCCT	1 cut(s)	456
Eco31I	GGTCTC	1 cut(s)	58
Eco57I	CTGAAG	3 cut(s)	189, 237, 468
EcoRII	CCWGG	1 cut(s)	636
EcoT22I	ATGCAT	1 cut(s)	1057
FaeI	CATG	4 cut(s)	832, 863, 1115, 1139
FalI	AAGNNNNNCTT	4 cut(s)	1056, 1088, 1227, 1259
FaqI	GGGAC	1 cut(s)	957
FatI	CATG	4 cut(s)	828, 859, 1111, 1135
FblI	GTMKAC	1 cut(s)	164
Fnu4HI	GCNGC	1 cut(s)	864
FokI	GGATG	2 cut(s)	17, 558
Fsp4HI	GCNGC	1 cut(s)	864
FspBI	CTAG	3 cut(s)	477, 617, 1079
GlaI	GCGC	2 cut(s)	922, 993
GluI	GCNGC	1 cut(s)	864
HaeIII	GGCC	2 cut(s)	456, 1020
HhaI	GCGC	2 cut(s)	923, 994
Hin1II	CATG	4 cut(s)	832, 863, 1115, 1139
Hin6I	GCGC	2 cut(s)	921, 992
HinP1I	GCGC	2 cut(s)	921, 992
HincII	GTYRAC	2 cut(s)	34, 598
HindII	GTYRAC	2 cut(s)	34, 598
HindIII	AAGCTT	1 cut(s)	590
HinfI	GANTC	6 cut(s)	437, 629, 646, 674, 936, 1147
HphI	GGTGA	3 cut(s)	653, 806, 1132
Hpy166II	GTNNAC	7 cut(s)	34, 77, 86, 151, 165, 598, 1261
Hpy188I	TCNGA	9 cut(s)	356, 378, 487, 606, 718, 769, 895, 1098, 1207
Hpy188III	TCNNGA	7 cut(s)	185, 477, 533, 575, 650, 1079, 1307
Hpy8I	GTNNAC	7 cut(s)	34, 77, 86, 151, 165, 598, 1261
HpyAV	CCTTC	3 cut(s)	275, 446, 1120
HpyCH4III	ACNGT	4 cut(s)	292, 656, 823, 1120
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1017
HpyF3I	CTNAG	7 cut(s)	80, 112, 225, 375, 562, 870, 910
Hsp92II	CATG	4 cut(s)	832, 863, 1115, 1139
HspAI	GCGC	2 cut(s)	921, 992
Kzo9I	GATC	4 cut(s)	368, 694, 713, 1202
LmnI	GCTCC	1 cut(s)	1113
Lsp1109I	GCAGC	1 cut(s)	875
LweI	GCATC	7 cut(s)	257, 352, 483, 894, 1042, 1078, 1165
MaeI	CTAG	3 cut(s)	477, 617, 1079
MaeIII	GTNAC	2 cut(s)	124, 211
MalI	GATC	4 cut(s)	370, 696, 715, 1204
MboI	GATC	4 cut(s)	368, 694, 713, 1202
MflI	RGATCY	3 cut(s)	368, 713, 1202
MhlI	GDGCHC	3 cut(s)	153, 184, 828
MluCI	AATT	9 cut(s)	315, 504, 578, 621, 777, 949, 1005, 1100, 1160
MlyI	GAGTC	1 cut(s)	930
Mph1103I	ATGCAT	1 cut(s)	1057
MseI	TTAA	6 cut(s)	411, 704, 735, 798, 1062, 1103
MslI	CAYNNNNRTG	2 cut(s)	197, 1287
MspR9I	CCNGG	1 cut(s)	638
Mva1269I	GAATGC	2 cut(s)	113, 310
MvaI	CCWGG	1 cut(s)	638
MvnI	CGCG	1 cut(s)	921
MwoI	GCNNNNNNNGC	1 cut(s)	1017
NdeII	GATC	4 cut(s)	368, 694, 713, 1202
NlaIII	CATG	4 cut(s)	832, 863, 1115, 1139
NlaIV	GGNNCC	1 cut(s)	1204
NsiI	ATGCAT	1 cut(s)	1057
NspV	TTCGAA	1 cut(s)	662
PasI	CCCWGGG	1 cut(s)	637
PceI	AGGCCT	1 cut(s)	456
PctI	GAATGC	2 cut(s)	113, 310
PfeI	GAWTC	5 cut(s)	437, 629, 646, 674, 1147
PkrI	GCNGC	1 cut(s)	865
PleI	GAGTC	1 cut(s)	930
PpsI	GAGTC	1 cut(s)	930
Psp6I	CCWGG	1 cut(s)	636
PspGI	CCWGG	1 cut(s)	636
PspN4I	GGNNCC	1 cut(s)	1204
PspPI	GGNCC	1 cut(s)	1018
PsrI	GAACNNNNNNTAC	2 cut(s)	946, 978
PstNI	CAGNNNCTG	2 cut(s)	215, 869
PsuI	RGATCY	3 cut(s)	368, 713, 1202
RsaI	GTAC	3 cut(s)	85, 1168, 1262
RsaNI	GTAC	3 cut(s)	84, 1167, 1261
RseI	CAYNNNNRTG	2 cut(s)	197, 1287
SaqAI	TTAA	6 cut(s)	411, 704, 735, 798, 1062, 1103
SatI	GCNGC	1 cut(s)	864
Sau3AI	GATC	4 cut(s)	368, 694, 713, 1202
Sau96I	GGNCC	1 cut(s)	1018
SchI	GAGTC	1 cut(s)	930
ScrFI	CCNGG	1 cut(s)	638
SduI	GDGCHC	3 cut(s)	153, 184, 828
SfaNI	GCATC	7 cut(s)	257, 352, 483, 894, 1042, 1078, 1165
SfuI	TTCGAA	1 cut(s)	662
SmiMI	CAYNNNNRTG	2 cut(s)	197, 1287
SmlI	CTYRAG	3 cut(s)	183, 460, 938
SmoI	CTYRAG	3 cut(s)	183, 460, 938
Sse9I	AATT	9 cut(s)	315, 504, 578, 621, 777, 949, 1005, 1100, 1160
SseBI	AGGCCT	1 cut(s)	456
SsiI	CCGC	1 cut(s)	27
SspMI	CTAG	3 cut(s)	477, 617, 1079
StuI	AGGCCT	1 cut(s)	456
StyD4I	CCNGG	1 cut(s)	636
TaaI	ACNGT	4 cut(s)	292, 656, 823, 1120
TaqI	TCGA	1 cut(s)	662
TaqII	GACCGA	1 cut(s)	317
TasI	AATT	9 cut(s)	315, 504, 578, 621, 777, 949, 1005, 1100, 1160
TatI	WGTACW	1 cut(s)	83
TfiI	GAWTC	5 cut(s)	437, 629, 646, 674, 1147
Tru1I	TTAA	6 cut(s)	411, 704, 735, 798, 1062, 1103
Tru9I	TTAA	6 cut(s)	411, 704, 735, 798, 1062, 1103
TscAI	CASTG	2 cut(s)	297, 522
TseI	GCWGC	1 cut(s)	863
TspDTI	ATGAA	8 cut(s)	117, 276, 538, 681, 699, 705, 848, 1139
TspGWI	ACGGA	2 cut(s)	143, 1220
TspRI	CASTG	2 cut(s)	297, 522
VneI	GTGCAC	1 cut(s)	149
XapI	RAATTY	1 cut(s)	1160
XbaI	TCTAGA	2 cut(s)	476, 1078
XmiI	GTMKAC	1 cut(s)	164
XspI	CTAG	3 cut(s)	477, 617, 1079
Zsp2I	ATGCAT	1 cut(s)	1057

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