Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0009331

Physical Location & Seq

Genomic Coordinates Reverse (-)

22604336 .. 22608242

Gene Structure 3907 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG121100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGTCGTCGACGCTACTGGAGGTGACGCGTGGCGCTCACGAGGAGGTGGAGCGCTTGGAGCGTCTGATAGTGAAGGACTTACAGAACGAGCCGGCGAGCAGCAAGGAACGCTTGGCTCAGAGCCACCGTGTCCGCCTCATGATCGACACCGTCACCTCCACCACAGAAAGACTCATTGAGATCTATGAGGATAACGATAATGCGAGGAAGGACGAGATTGCGGCTCTCGGAGGCCAAACTGCCACCGGCACCAATGTGTTTAGTGCATTCTATGATAGATTGAAAGAGATCCGTGAGTACCATAGGAGACATCCAGCTGCACTAGTTGTCGATGCTAATGAGGAACATGAAGCCCTGCTCAAGGAGGAGCCTCAAGCATTGGCTTCGTTAGGACTGAAGATAGGGGGTACTGTTCAGCAACGTGCAGAGAGGCTTTTACTTACAAAGGATACACCTCTGGAAAAGTTGGACAAGAAGCATTTTGCCAAAGGGTCACGTGGTTCAGCACAGAATGGGGCTGCTGTAGCTCCACAGCAAGTTGGCATGTTAATAGAAATTGCTCTCTTGGAAGCCAAATTGAAAAAACTAAGCGACTTACTGAGTGAGGCTATTGAACGAACAAAAGACAACATTGTTAAGAAACAGGCTTTGACATATGAAGAAATTGCAGCAGAACGTGAGGATGAAGAGACACAGGCTGATACTGAAAGTGATGACGATGAGCAGCAGATTTATAATCCACTCAAATTGCCAATGGGTTGGGATGGGAAGCCCATACCTTACTGGCTGTATAAGCTTCATGGTCTTGGTCAGGAATTCAAGTGTGAGATATGTGGGAATCAGAGTTACTGGGGGCGTAGAGCTTTTGAGCGGCATTTTAAGGAATGGCGCCATCAGCATGGAATGCGTTGCCTTGGCATACCAAACACCAAGAACTTCAATGAGATCACATCAATTGAGGAAGCACAAGAATTGTGGAAGAGGATACAAGCACGGCAAGGGGTGAACAAGTGGCGCCCAGACCTTGAAGAAGAGTATGAAGACAGAGAGGGCAACATCTATAATAAAAAGACATATACTGATCTCCAGCGACAGGGACTAATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000389 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005737 GO:0005829 GO:0006139 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0022607 GO:0022613 GO:0022618 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043900 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045595 GO:0045694 GO:0046483 GO:0050789 GO:0050793 GO:0050794 GO:0051239 GO:0065003 GO:0065007 GO:0070013 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1902494 GO:1990904 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DUF3449 SF3A3 SF3a60_bindingd Telomere_Sde2_2

Protein Analysis

368

Amino Acids

42.35

Weight (kDa)

5.56

Isoelectric Point (pI)

42.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SF3a60_bindingd	PF12108	80 - 105	2.9e-12	Splicing factor SF3a60 binding domain
SDE2_2C	PF13297	125 - 163	5.3e-14	Replication stress response SDE2 C-terminal
SF3a60_Prp9_C	PF11931	249 - 368	1.8e-57	SF3a60/Prp9 C-terminal

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: OG0009331)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G06160
fragaria_vesca	FvH4_1g22860 FvH4_5g28470 FvH4_7g05370 FvH4_7g06390
malus_domestica	MD01G1219700.v1.1 MD07G1290300.v1.1
prunus_persica	Prupe.2G311500_v2.0.a1
pyrus_communis	pycom01g22950 pycom07g26290
rosa_chinensis	RchiOBHm_Chr1g0331941
rosa_laevigata	RLG00000025855 RLG00000029702
rosa_multiflora	Rmu_sc0004874.1_g000018 Rmu_sc0008128.1_g000009
rosa_roxburghii	Rroxscaffold_4G00318600
rosa_rugosa	Rorug01G0097000
rosa_samantha	Rh1AG121100 Rh1BG092700 Rh1CG115900 Rh1DG127000
rosa_wichuraiana	Rw1G009880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	735
AccB1I	GGYRCC	3 cut(s)	248, 888, 1014
AccBSI	CCGCTC	1 cut(s)	871
AccI	GTMKAC	1 cut(s)	8
AccII	CGCG	1 cut(s)	28
AciI	CCGC	3 cut(s)	133, 221, 871
AclWI	GGATC	1 cut(s)	283
AcsI	RAATTY	1 cut(s)	815
AcuI	CTGAAG	1 cut(s)	416
AcvI	CACGTG	1 cut(s)	497
AcyI	GRCGYC	2 cut(s)	889, 1015
AfaI	GTAC	2 cut(s)	299, 409
AfeI	AGCGCT	1 cut(s)	53
AfiI	CCNNNNNNNGG	2 cut(s)	361, 1093
AflIII	ACRYGT	1 cut(s)	26
AgsI	TTSAA	6 cut(s)	283, 580, 614, 820, 940, 1028
AhlI	ACTAGT	1 cut(s)	322
AleI	CACNNNNGTG	1 cut(s)	254
AluBI	AGCT	4 cut(s)	317, 527, 796, 863
AluI	AGCT	4 cut(s)	317, 527, 796, 863
Alw26I	GTCTC	2 cut(s)	301, 683
AlwI	GGATC	1 cut(s)	283
Aor51HI	AGCGCT	1 cut(s)	53
AoxI	GGCC	1 cut(s)	232
ApeKI	GCWGC	5 cut(s)	99, 317, 518, 668, 724
ApoI	RAATTY	1 cut(s)	815
AspLEI	GCGC	4 cut(s)	35, 54, 891, 1017
AsuHPI	GGTGA	3 cut(s)	34, 145, 1015
BanI	GGYRCC	3 cut(s)	248, 888, 1014
BauI	CACGAG	1 cut(s)	38
BbrPI	CACGTG	1 cut(s)	497
BbsI	GAAGAC	1 cut(s)	1047
BbvI	GCAGC	5 cut(s)	111, 304, 505, 680, 736
BccI	CCATC	2 cut(s)	758, 900
BceAI	ACGGC	1 cut(s)	1010
BcgI	CGANNNNNNTGC	2 cut(s)	366, 400
BciVI	GTATCC	2 cut(s)	442, 978
BcoDI	GTCTC	2 cut(s)	301, 683
BcuI	ACTAGT	1 cut(s)	322
BfaI	CTAG	1 cut(s)	323
BfmI	CTRYAG	1 cut(s)	522
BfoI	RGCGCY	4 cut(s)	36, 55, 892, 1018
BfuI	GTATCC	2 cut(s)	442, 978
BglII	AGATCT	1 cut(s)	180
BisI	GCNGC	7 cut(s)	100, 222, 318, 519, 669, 725, 872
BlsI	GCNGC	7 cut(s)	101, 223, 319, 520, 670, 726, 873
BmiI	GGNNCC	4 cut(s)	250, 369, 890, 1016
BmrI	ACTGGG	1 cut(s)	859
BmsI	GCATC	1 cut(s)	322
BmuI	ACTGGG	1 cut(s)	859
BpiI	GAAGAC	1 cut(s)	1047
BpmI	CTGGAG	2 cut(s)	38, 1070
BpuEI	CTTGAG	2 cut(s)	344, 357
BsaAI	YACGTR	1 cut(s)	497
BsaHI	GRCGYC	2 cut(s)	889, 1015
BsaJI	CCNNGG	1 cut(s)	913
Bsc4I	CCNNNNNNNGG	2 cut(s)	361, 1093
Bse118I	RCCGGY	2 cut(s)	91, 245
Bse1I	ACTGG	3 cut(s)	21, 788, 854
BseDI	CCNNGG	1 cut(s)	913
BseGI	GGATG	3 cut(s)	310, 688, 769
BseLI	CCNNNNNNNGG	2 cut(s)	361, 1093
BseMII	CTCAG	2 cut(s)	131, 590
BseNI	ACTGG	3 cut(s)	21, 788, 854
BseRI	GAGGAG	2 cut(s)	56, 380
BseXI	GCAGC	5 cut(s)	111, 304, 505, 680, 736
BsgI	GTGCAG	2 cut(s)	303, 444
Bsh1236I	CGCG	1 cut(s)	28
BshFI	GGCC	1 cut(s)	234
BshNI	GGYRCC	3 cut(s)	248, 888, 1014
BsiSI	CCGG	2 cut(s)	92, 246
BslI	CCNNNNNNNGG	2 cut(s)	361, 1093
BsmAI	GTCTC	2 cut(s)	301, 683
BsmI	GAATGC	2 cut(s)	266, 909
BsnI	GGCC	1 cut(s)	234
Bsp143I	GATC	5 cut(s)	141, 180, 288, 945, 1081
BspACI	CCGC	3 cut(s)	133, 221, 871
BspANI	GGCC	1 cut(s)	234
BspCNI	CTCAG	2 cut(s)	130, 591
BspFNI	CGCG	1 cut(s)	28
BspHI	TCATGA	1 cut(s)	138
BspLI	GGNNCC	4 cut(s)	250, 369, 890, 1016
BspPI	GGATC	1 cut(s)	283
BspT107I	GGYRCC	3 cut(s)	248, 888, 1014
BsrBI	CCGCTC	1 cut(s)	871
BsrFI	RCCGGY	2 cut(s)	91, 245
BsrI	ACTGG	3 cut(s)	21, 788, 854
BssAI	RCCGGY	2 cut(s)	91, 245
BssECI	CCNNGG	1 cut(s)	913
BssMI	GATC	5 cut(s)	141, 180, 288, 945, 1081
BssNI	GRCGYC	2 cut(s)	889, 1015
BssSI	CACGAG	1 cut(s)	38
BssT1I	CCWWGG	1 cut(s)	913
Bst2BI	CACGAG	1 cut(s)	38
Bst4CI	ACNGT	3 cut(s)	128, 151, 412
Bst6I	CTCTTC	3 cut(s)	681, 974, 1026
BstACI	GRCGYC	2 cut(s)	889, 1015
BstAPI	GCANNNNNTGC	1 cut(s)	904
BstBAI	YACGTR	1 cut(s)	497
BstC8I	GCNNGC	2 cut(s)	93, 97
BstDEI	CTNAG	3 cut(s)	117, 587, 599
BstENI	CCTNNNNNAGG	1 cut(s)	359
BstF5I	GGATG	3 cut(s)	310, 688, 769
BstFNI	CGCG	1 cut(s)	28
BstH2I	RGCGCY	4 cut(s)	36, 55, 892, 1018
BstHHI	GCGC	4 cut(s)	35, 54, 891, 1017
BstKTI	GATC	5 cut(s)	144, 183, 291, 948, 1084
BstMAI	GTCTC	2 cut(s)	301, 683
BstMBI	GATC	5 cut(s)	141, 180, 288, 945, 1081
BstMWI	GCNNNNNNNGC	6 cut(s)	58, 108, 524, 793, 895, 904
BstNSI	RCATGY	1 cut(s)	547
BstSFI	CTRYAG	1 cut(s)	522
BstUI	CGCG	1 cut(s)	28
BstV1I	GCAGC	5 cut(s)	111, 304, 505, 680, 736
BstV2I	GAAGAC	1 cut(s)	1047
BstX2I	RGATCY	2 cut(s)	180, 288
BstXI	CCANNNNNNTGG	2 cut(s)	759, 899
BstYI	RGATCY	2 cut(s)	180, 288
BsuI	GTATCC	2 cut(s)	442, 978
BsuRI	GGCC	1 cut(s)	234
BtsCI	GGATG	3 cut(s)	310, 688, 769
Cac8I	GCNNGC	2 cut(s)	93, 97
CciI	TCATGA	1 cut(s)	138
CfoI	GCGC	4 cut(s)	35, 54, 891, 1017
Cfr10I	RCCGGY	2 cut(s)	91, 245
CseI	GACGC	3 cut(s)	19, 34, 50
Csp6I	GTAC	2 cut(s)	298, 408
CspCI	CAANNNNNGTGG	4 cut(s)	729, 764, 956, 991
CviAII	CATG	5 cut(s)	139, 347, 544, 800, 899
CviQI	GTAC	2 cut(s)	298, 408
DdeI	CTNAG	3 cut(s)	117, 587, 599
DinI	GGCGCC	2 cut(s)	890, 1016
DpnI	GATC	5 cut(s)	143, 182, 290, 947, 1083
DpnII	GATC	5 cut(s)	141, 180, 288, 945, 1081
Eam1104I	CTCTTC	3 cut(s)	681, 974, 1026
EarI	CTCTTC	3 cut(s)	681, 974, 1026
EciI	GGCGGA	1 cut(s)	122
Eco130I	CCWWGG	1 cut(s)	913
Eco47III	AGCGCT	1 cut(s)	53
Eco57I	CTGAAG	1 cut(s)	416
Eco72I	CACGTG	1 cut(s)	497
EcoNI	CCTNNNNNAGG	1 cut(s)	359
EcoRI	GAATTC	1 cut(s)	815
EcoT14I	CCWWGG	1 cut(s)	913
EgeI	GGCGCC	2 cut(s)	890, 1016
EheI	GGCGCC	2 cut(s)	890, 1016
ErhI	CCWWGG	1 cut(s)	913
FaeI	CATG	5 cut(s)	142, 350, 547, 803, 902
FalI	AAGNNNNNCTT	2 cut(s)	95, 127
FatI	CATG	5 cut(s)	138, 346, 543, 799, 898
FauNDI	CATATG	1 cut(s)	655
FblI	GTMKAC	1 cut(s)	8
Fnu4HI	GCNGC	7 cut(s)	100, 222, 318, 519, 669, 725, 872
FokI	GGATG	3 cut(s)	297, 695, 776
Fsp4HI	GCNGC	7 cut(s)	100, 222, 318, 519, 669, 725, 872
FspBI	CTAG	1 cut(s)	323
GlaI	GCGC	4 cut(s)	34, 53, 890, 1016
GluI	GCNGC	7 cut(s)	100, 222, 318, 519, 669, 725, 872
GsuI	CTGGAG	2 cut(s)	38, 1070
HaeII	RGCGCY	4 cut(s)	36, 55, 892, 1018
HaeIII	GGCC	1 cut(s)	234
HapII	CCGG	2 cut(s)	92, 246
HgaI	GACGC	3 cut(s)	19, 34, 50
HhaI	GCGC	4 cut(s)	35, 54, 891, 1017
Hin1I	GRCGYC	2 cut(s)	889, 1015
Hin1II	CATG	5 cut(s)	142, 350, 547, 803, 902
Hin6I	GCGC	4 cut(s)	33, 52, 889, 1015
HinP1I	GCGC	4 cut(s)	33, 52, 889, 1015
HincII	GTYRAC	1 cut(s)	9
HindII	GTYRAC	1 cut(s)	9
HindIII	AAGCTT	1 cut(s)	794
HinfI	GANTC	2 cut(s)	171, 838
HpaII	CCGG	2 cut(s)	92, 246
HphI	GGTGA	3 cut(s)	34, 145, 1015
Hpy166II	GTNNAC	2 cut(s)	9, 1006
Hpy188I	TCNGA	4 cut(s)	66, 120, 230, 843
Hpy188III	TCNNGA	4 cut(s)	38, 139, 458, 812
Hpy8I	GTNNAC	2 cut(s)	9, 1006
Hpy99I	CGWCG	2 cut(s)	10, 13
HpyAV	CCTTC	2 cut(s)	67, 202
HpyCH4III	ACNGT	3 cut(s)	128, 151, 412
HpyCH4IV	ACGT	3 cut(s)	421, 496, 676
HpyCH4V	TGCA	4 cut(s)	266, 320, 425, 668
HpyF10VI	GCNNNNNNNGC	6 cut(s)	58, 108, 524, 793, 895, 904
HpyF3I	CTNAG	3 cut(s)	117, 587, 599
HpySE526I	ACGT	3 cut(s)	421, 496, 676
Hsp92I	GRCGYC	2 cut(s)	889, 1015
Hsp92II	CATG	5 cut(s)	142, 350, 547, 803, 902
HspAI	GCGC	4 cut(s)	33, 52, 889, 1015
KasI	GGCGCC	2 cut(s)	888, 1014
KroI	GCCGGC	1 cut(s)	91
KroNI	GCCGGC	1 cut(s)	93
Kzo9I	GATC	5 cut(s)	141, 180, 288, 945, 1081
LmnI	GCTCC	4 cut(s)	49, 58, 367, 532
Lsp1109I	GCAGC	5 cut(s)	111, 304, 505, 680, 736
LweI	GCATC	1 cut(s)	322
MaeI	CTAG	1 cut(s)	323
MaeII	ACGT	3 cut(s)	421, 496, 676
MaeIII	GTNAC	4 cut(s)	22, 151, 492, 845
MalI	GATC	5 cut(s)	143, 182, 290, 947, 1083
MbiI	CCGCTC	1 cut(s)	871
MboI	GATC	5 cut(s)	141, 180, 288, 945, 1081
MboII	GAAGA	7 cut(s)	409, 671, 698, 991, 1040, 1043, 1052
MfeI	CAATTG	1 cut(s)	954
MflI	RGATCY	2 cut(s)	180, 288
MluCI	AATT	8 cut(s)	555, 575, 663, 746, 815, 954, 971, 1101
MluI	ACGCGT	1 cut(s)	26
Mly113I	GGCGCC	2 cut(s)	889, 1015
MlyI	GAGTC	1 cut(s)	165
MmeI	TCCRAC	1 cut(s)	447
MroNI	GCCGGC	1 cut(s)	91
MseI	TTAA	4 cut(s)	548, 636, 879, 1105
MslI	CAYNNNNRTG	2 cut(s)	254, 897
MspA1I	CMGCKG	1 cut(s)	317
MspI	CCGG	2 cut(s)	92, 246
MunI	CAATTG	1 cut(s)	954
Mva1269I	GAATGC	2 cut(s)	266, 909
MvnI	CGCG	1 cut(s)	28
MwoI	GCNNNNNNNGC	6 cut(s)	58, 108, 524, 793, 895, 904
NaeI	GCCGGC	1 cut(s)	93
NarI	GGCGCC	2 cut(s)	889, 1015
NdeI	CATATG	1 cut(s)	655
NdeII	GATC	5 cut(s)	141, 180, 288, 945, 1081
NgoMIV	GCCGGC	1 cut(s)	91
NlaIII	CATG	5 cut(s)	142, 350, 547, 803, 902
NlaIV	GGNNCC	4 cut(s)	250, 369, 890, 1016
NmuCI	GTSAC	3 cut(s)	22, 151, 492
NspI	RCATGY	1 cut(s)	547
OliI	CACNNNNGTG	1 cut(s)	254
PagI	TCATGA	1 cut(s)	138
PctI	GAATGC	2 cut(s)	266, 909
PdiI	GCCGGC	1 cut(s)	93
PfeI	GAWTC	1 cut(s)	838
PflFI	GACNNNGTC	1 cut(s)	149
PkrI	GCNGC	7 cut(s)	101, 223, 319, 520, 670, 726, 873
PleI	GAGTC	1 cut(s)	165
PluTI	GGCGCC	2 cut(s)	892, 1018
PmaCI	CACGTG	1 cut(s)	497
PmlI	CACGTG	1 cut(s)	497
PpsI	GAGTC	1 cut(s)	165
Ppu21I	YACGTR	1 cut(s)	497
PsiI	TTATAA	1 cut(s)	735
PspCI	CACGTG	1 cut(s)	497
PspN4I	GGNNCC	4 cut(s)	250, 369, 890, 1016
PsuI	RGATCY	2 cut(s)	180, 288
PsyI	GACNNNGTC	1 cut(s)	149
PvuII	CAGCTG	1 cut(s)	317
RsaI	GTAC	2 cut(s)	299, 409
RsaNI	GTAC	2 cut(s)	298, 408
RseI	CAYNNNNRTG	2 cut(s)	254, 897
SalI	GTCGAC	1 cut(s)	7
SaqAI	TTAA	4 cut(s)	548, 636, 879, 1105
SatI	GCNGC	7 cut(s)	100, 222, 318, 519, 669, 725, 872
Sau3AI	GATC	5 cut(s)	141, 180, 288, 945, 1081
SchI	GAGTC	1 cut(s)	165
SfaNI	GCATC	1 cut(s)	322
SfcI	CTRYAG	1 cut(s)	522
SfoI	GGCGCC	2 cut(s)	890, 1016
SgrDI	CGTCGACG	1 cut(s)	7
SmiMI	CAYNNNNRTG	2 cut(s)	254, 897
SmlI	CTYRAG	2 cut(s)	359, 372
SmoI	CTYRAG	2 cut(s)	359, 372
SpeI	ACTAGT	1 cut(s)	322
Sse9I	AATT	8 cut(s)	555, 575, 663, 746, 815, 954, 971, 1101
SsiI	CCGC	3 cut(s)	133, 221, 871
SspDI	GGCGCC	2 cut(s)	888, 1014
SspMI	CTAG	1 cut(s)	323
StyI	CCWWGG	1 cut(s)	913
TaaI	ACNGT	3 cut(s)	128, 151, 412
TaiI	ACGT	3 cut(s)	424, 499, 679
TaqI	TCGA	3 cut(s)	8, 144, 330
TasI	AATT	8 cut(s)	555, 575, 663, 746, 815, 954, 971, 1101
TauI	GCSGC	2 cut(s)	224, 874
TfiI	GAWTC	1 cut(s)	838
Tru1I	TTAA	4 cut(s)	548, 636, 879, 1105
Tru9I	TTAA	4 cut(s)	548, 636, 879, 1105
TseFI	GTSAC	3 cut(s)	22, 151, 492
TseI	GCWGC	5 cut(s)	99, 317, 518, 668, 724
Tsp45I	GTSAC	3 cut(s)	22, 151, 492
TspDTI	ATGAA	5 cut(s)	363, 672, 699, 788, 1053
TspGWI	ACGGA	1 cut(s)	281
Tth111I	GACNNNGTC	1 cut(s)	149
XagI	CCTNNNNNAGG	1 cut(s)	359
XapI	RAATTY	1 cut(s)	815
XceI	RCATGY	1 cut(s)	547
XmiI	GTMKAC	1 cut(s)	8
XspI	CTAG	1 cut(s)	323

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