Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0016249

Physical Location & Seq

Genomic Coordinates Reverse (-)

27782666 .. 27784414

Gene Structure 1749 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00022500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 741 bp

ATGGTATATGACGAGATTGTGGCTGTTGAGAGGCGGAACAGGGATTGGAGCAGGGTTCACTATGAGCAAGAGGTCAGAAACAATCCTCTGAATTACGACTCCTGGCTCGCTTACATAGGGCTAGAAGAGAGTGCTGCTGCGAATAAGCACCGAATCAGAGAGCTGTTCCGGCGAGCTACAGCTAATGTTCCTCCGGTGCCGGAGTTGTACGGGGACGGGAAGCTTCGGTGGCGGCGCTATGTTGATTTGTGGATCTATTATGCAACTTATGAGGAGGGTTCGGGAGGAGACGCGAGACAAGTTTATGAGCAGTGCCTTGCGGTGATTCCTCATGACAAGTTCTCATTTGCCAAGGTTTGGCTTCTTGCAGCGGGTTTGGAGTTACGACAGGGGAATCTCAAGGGTGCGCGGAAGATCCTGGCCACCGCCATAAGAACGGCACCAAAACCCAAGATATTTAGCAAGTGCATTGAGATGGAGATGAAGCTTGGGAATTTGAATCAGTGTCGGAAACTGTACGAGAAGTATGTGTGTTGGAAACCACACAACTGGGATGGTTGGGTCAAGTACGCAGAGTTTGAGAGAGCATTGGGGGAGACAGAACGAGTGAGGGCCCTTTTCGAATTAGGTATCCAGCAGCCGGAAATCGACCTTCTTGAGCGGTTGTGGTGGGCGTACATTGAGTTTGAAATTTCCGAGGGGAGTTTGAGAGAACTAGACAACTTTACGAGAGACTACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000398 GO:0000974 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0006139 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: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:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0065003 GO:0070013 GO:0071007 GO:0071010 GO:0071011 GO:0071012 GO:0071013 GO:0071014 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

HAT Suf TPR_8

Protein Analysis

246

Amino Acids

29.18

Weight (kDa)

6.92

Isoelectric Point (pI)

47.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_N	PF23233	19 - 181	2.6e-09	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_Syf1_CNRKL1_C	PF23231	79 - 177	3.1e-06	Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat
TPR_19	PF14559	91 - 150	6.1e-06	Tetratricopeptide repeat
HAT_PRP39_N	PF23240	154 - 239	1.3e-08	PRP39 N-terminal HAT repeat
HAT_Syf1_CNRKL1_C	PF23231	169 - 236	4.3e-06	Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0016249)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g30201 FvH4_2g16142 FvH4_3g31373 FvH4_3g31400 FvH4_4g08572 FvH4_4g10191 FvH4_4g14141 FvH4_5g06903 FvH4_7g04901
rosa_chinensis	RchiOBHm_Chr5g0058111
rosa_roxburghii	Rroxscaffold_1G00022500
rosa_rugosa	Rorug05G0310800
rosa_samantha	Rh5AG379500 Rh5CG414500 Rh7BG226700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	196, 439
AccB7I	CCANNNNNTGG	1 cut(s)	357
AccBSI	CCGCTC	1 cut(s)	661
AccII	CGCG	2 cut(s)	293, 409
AciI	CCGC	7 cut(s)	34, 232, 320, 371, 409, 426, 661
AclWI	GGATC	2 cut(s)	260, 409
AcoI	YGGCCR	1 cut(s)	420
AcsI	RAATTY	2 cut(s)	493, 690
AfaI	GTAC	4 cut(s)	209, 518, 569, 677
AfiI	CCNNNNNNNGG	2 cut(s)	357, 640
AgsI	TTSAA	2 cut(s)	499, 689
AjnI	CCWGG	2 cut(s)	101, 417
AluBI	AGCT	5 cut(s)	163, 176, 182, 223, 487
AluI	AGCT	5 cut(s)	163, 176, 182, 223, 487
Alw26I	GTCTC	4 cut(s)	282, 289, 590, 726
AlwI	GGATC	2 cut(s)	260, 409
AoxI	GGCC	2 cut(s)	420, 612
ApaI	GGGCCC	1 cut(s)	616
ApeKI	GCWGC	4 cut(s)	134, 137, 368, 637
ApoI	RAATTY	2 cut(s)	493, 690
AspLEI	GCGC	2 cut(s)	237, 409
AspS9I	GGNCC	2 cut(s)	612, 613
AsuHPI	GGTGA	1 cut(s)	334
AsuII	TTCGAA	1 cut(s)	621
BaeGI	GKGCMC	1 cut(s)	616
BalI	TGGCCA	1 cut(s)	422
BanI	GGYRCC	2 cut(s)	196, 439
BanII	GRGCYC	1 cut(s)	616
BbvI	GCAGC	4 cut(s)	121, 124, 380, 649
BccI	CCATC	2 cut(s)	469, 548
BceAI	ACGGC	1 cut(s)	453
BciT130I	CCWGG	2 cut(s)	103, 419
BciVI	GTATCC	1 cut(s)	641
BcoDI	GTCTC	4 cut(s)	282, 289, 590, 726
BfaI	CTAG	3 cut(s)	122, 716, 739
BfmI	CTRYAG	1 cut(s)	177
BfoI	RGCGCY	1 cut(s)	238
BfuI	GTATCC	1 cut(s)	641
BisI	GCNGC	5 cut(s)	135, 138, 233, 369, 638
BlsI	GCNGC	5 cut(s)	136, 139, 234, 370, 639
Bme1390I	CCNGG	2 cut(s)	103, 419
BmgT120I	GGNCC	2 cut(s)	612, 613
BmiI	GGNNCC	3 cut(s)	198, 441, 614
BmrFI	CCNGG	2 cut(s)	103, 419
BmrI	ACTGGG	1 cut(s)	559
BmuI	ACTGGG	1 cut(s)	559
Bpu14I	TTCGAA	1 cut(s)	621
BpuEI	CTTGAG	2 cut(s)	383, 677
BsaJI	CCNNGG	2 cut(s)	351, 696
BsaWI	WCCGGW	1 cut(s)	193
Bsc4I	CCNNNNNNNGG	2 cut(s)	357, 640
Bse1I	ACTGG	1 cut(s)	554
BseBI	CCWGG	2 cut(s)	103, 419
BseDI	CCNNGG	2 cut(s)	351, 696
BseGI	GGATG	1 cut(s)	559
BseLI	CCNNNNNNNGG	2 cut(s)	357, 640
BseNI	ACTGG	1 cut(s)	554
BseRI	GAGGAG	2 cut(s)	287, 300
BseSI	GKGCMC	1 cut(s)	616
BseXI	GCAGC	4 cut(s)	121, 124, 380, 649
Bsh1236I	CGCG	2 cut(s)	293, 409
BshFI	GGCC	2 cut(s)	422, 614
BshNI	GGYRCC	2 cut(s)	196, 439
BsiSI	CCGG	4 cut(s)	169, 194, 200, 641
BslFI	GGGAC	1 cut(s)	227
BslI	CCNNNNNNNGG	2 cut(s)	357, 640
BsmAI	GTCTC	4 cut(s)	282, 289, 590, 726
BsmBI	CGTCTC	1 cut(s)	282
BsmFI	GGGAC	1 cut(s)	227
BsnI	GGCC	2 cut(s)	422, 614
Bsp119I	TTCGAA	1 cut(s)	621
Bsp120I	GGGCCC	1 cut(s)	612
Bsp1286I	GDGCHC	1 cut(s)	616
Bsp143I	GATC	2 cut(s)	252, 414
BspACI	CCGC	7 cut(s)	34, 232, 320, 371, 409, 426, 661
BspANI	GGCC	2 cut(s)	422, 614
BspFNI	CGCG	2 cut(s)	293, 409
BspHI	TCATGA	1 cut(s)	331
BspLI	GGNNCC	3 cut(s)	198, 441, 614
BspPI	GGATC	2 cut(s)	260, 409
BspT104I	TTCGAA	1 cut(s)	621
BspT107I	GGYRCC	2 cut(s)	196, 439
BsrBI	CCGCTC	1 cut(s)	661
BsrI	ACTGG	1 cut(s)	554
BssECI	CCNNGG	2 cut(s)	351, 696
BssMI	GATC	2 cut(s)	252, 414
BssT1I	CCWWGG	1 cut(s)	351
Bst2UI	CCWGG	2 cut(s)	103, 419
Bst4CI	ACNGT	1 cut(s)	516
Bst6I	CTCTTC	1 cut(s)	120
BstBI	TTCGAA	1 cut(s)	621
BstC8I	GCNNGC	2 cut(s)	108, 174
BstF5I	GGATG	1 cut(s)	559
BstFNI	CGCG	2 cut(s)	293, 409
BstH2I	RGCGCY	1 cut(s)	238
BstHHI	GCGC	2 cut(s)	237, 409
BstKTI	GATC	2 cut(s)	255, 417
BstMAI	GTCTC	4 cut(s)	282, 289, 590, 726
BstMBI	GATC	2 cut(s)	252, 414
BstMWI	GCNNNNNNNGC	2 cut(s)	169, 229
BstNI	CCWGG	2 cut(s)	103, 419
BstSCI	CCNGG	2 cut(s)	101, 417
BstSFI	CTRYAG	1 cut(s)	177
BstSLI	GKGCMC	1 cut(s)	616
BstUI	CGCG	2 cut(s)	293, 409
BstV1I	GCAGC	4 cut(s)	121, 124, 380, 649
BstX2I	RGATCY	2 cut(s)	252, 414
BstXI	CCANNNNNNTGG	1 cut(s)	549
BstYI	RGATCY	2 cut(s)	252, 414
BsuI	GTATCC	1 cut(s)	641
BsuRI	GGCC	2 cut(s)	422, 614
BtsCI	GGATG	1 cut(s)	559
BtsI	GCAGTG	1 cut(s)	317
BtsIMutI	CAGTG	2 cut(s)	317, 509
Cac8I	GCNNGC	2 cut(s)	108, 174
CciI	TCATGA	1 cut(s)	331
CfoI	GCGC	2 cut(s)	237, 409
Cfr13I	GGNCC	2 cut(s)	612, 613
CseI	GACGC	1 cut(s)	299
Csp6I	GTAC	4 cut(s)	208, 517, 568, 676
CviAII	CATG	1 cut(s)	332
CviQI	GTAC	4 cut(s)	208, 517, 568, 676
DpnI	GATC	2 cut(s)	254, 416
DpnII	GATC	2 cut(s)	252, 414
EaeI	YGGCCR	1 cut(s)	420
Eam1104I	CTCTTC	1 cut(s)	120
EarI	CTCTTC	1 cut(s)	120
EciI	GGCGGA	1 cut(s)	49
Eco130I	CCWWGG	1 cut(s)	351
Eco24I	GRGCYC	1 cut(s)	616
EcoO109I	RGGNCCY	2 cut(s)	612, 613
EcoRII	CCWGG	2 cut(s)	101, 417
EcoT14I	CCWWGG	1 cut(s)	351
EcoT38I	GRGCYC	1 cut(s)	616
ErhI	CCWWGG	1 cut(s)	351
Esp3I	CGTCTC	1 cut(s)	282
FaeI	CATG	1 cut(s)	335
FaqI	GGGAC	1 cut(s)	227
FatI	CATG	1 cut(s)	331
FauI	CCCGC	1 cut(s)	364
Fnu4HI	GCNGC	5 cut(s)	135, 138, 233, 369, 638
FokI	GGATG	1 cut(s)	566
FriOI	GRGCYC	1 cut(s)	616
Fsp4HI	GCNGC	5 cut(s)	135, 138, 233, 369, 638
FspBI	CTAG	3 cut(s)	122, 716, 739
GlaI	GCGC	2 cut(s)	236, 408
GluI	GCNGC	5 cut(s)	135, 138, 233, 369, 638
HaeII	RGCGCY	1 cut(s)	238
HaeIII	GGCC	2 cut(s)	422, 614
HapII	CCGG	4 cut(s)	169, 194, 200, 641
HgaI	GACGC	1 cut(s)	299
HhaI	GCGC	2 cut(s)	237, 409
Hin1II	CATG	1 cut(s)	335
Hin6I	GCGC	2 cut(s)	235, 407
HinP1I	GCGC	2 cut(s)	235, 407
HindIII	AAGCTT	2 cut(s)	221, 485
HinfI	GANTC	5 cut(s)	98, 153, 325, 394, 499
HpaII	CCGG	4 cut(s)	169, 194, 200, 641
HphI	GGTGA	1 cut(s)	334
Hpy166II	GTNNAC	1 cut(s)	58
Hpy188I	TCNGA	5 cut(s)	77, 90, 158, 510, 697
Hpy188III	TCNNGA	3 cut(s)	282, 332, 656
Hpy8I	GTNNAC	1 cut(s)	58
HpyAV	CCTTC	1 cut(s)	662
HpyCH4III	ACNGT	1 cut(s)	516
HpyCH4V	TGCA	3 cut(s)	263, 368, 468
HpyF10VI	GCNNNNNNNGC	2 cut(s)	169, 229
Hsp92II	CATG	1 cut(s)	335
HspAI	GCGC	2 cut(s)	235, 407
Kzo9I	GATC	2 cut(s)	252, 414
LmnI	GCTCC	1 cut(s)	48
Lsp1109I	GCAGC	4 cut(s)	121, 124, 380, 649
MaeI	CTAG	3 cut(s)	122, 716, 739
MaeIII	GTNAC	1 cut(s)	381
MalI	GATC	2 cut(s)	254, 416
MbiI	CCGCTC	1 cut(s)	661
MboI	GATC	2 cut(s)	252, 414
MboII	GAAGA	2 cut(s)	137, 424
MflI	RGATCY	2 cut(s)	252, 414
MhlI	GDGCHC	1 cut(s)	616
MlsI	TGGCCA	1 cut(s)	422
MluCI	AATT	4 cut(s)	91, 493, 623, 690
MluNI	TGGCCA	1 cut(s)	422
MlyI	GAGTC	1 cut(s)	92
MmeI	TCCRAC	2 cut(s)	488, 515
Mox20I	TGGCCA	1 cut(s)	422
MscI	TGGCCA	1 cut(s)	422
MslI	CAYNNNNRTG	1 cut(s)	473
Msp20I	TGGCCA	1 cut(s)	422
MspA1I	CMGCKG	1 cut(s)	371
MspI	CCGG	4 cut(s)	169, 194, 200, 641
MspR9I	CCNGG	2 cut(s)	103, 419
MvaI	CCWGG	2 cut(s)	103, 419
MvnI	CGCG	2 cut(s)	293, 409
MwoI	GCNNNNNNNGC	2 cut(s)	169, 229
NdeII	GATC	2 cut(s)	252, 414
NlaIII	CATG	1 cut(s)	335
NlaIV	GGNNCC	3 cut(s)	198, 441, 614
NspV	TTCGAA	1 cut(s)	621
PagI	TCATGA	1 cut(s)	331
PfeI	GAWTC	4 cut(s)	153, 325, 394, 499
PflMI	CCANNNNNTGG	1 cut(s)	357
PkrI	GCNGC	5 cut(s)	136, 139, 234, 370, 639
PleI	GAGTC	1 cut(s)	92
PpsI	GAGTC	1 cut(s)	92
Psp6I	CCWGG	2 cut(s)	101, 417
PspGI	CCWGG	2 cut(s)	101, 417
PspN4I	GGNNCC	3 cut(s)	198, 441, 614
PspOMI	GGGCCC	1 cut(s)	612
PspPI	GGNCC	2 cut(s)	612, 613
PsuI	RGATCY	2 cut(s)	252, 414
RsaI	GTAC	4 cut(s)	209, 518, 569, 677
RsaNI	GTAC	4 cut(s)	208, 517, 568, 676
RseI	CAYNNNNRTG	1 cut(s)	473
SatI	GCNGC	5 cut(s)	135, 138, 233, 369, 638
Sau3AI	GATC	2 cut(s)	252, 414
Sau96I	GGNCC	2 cut(s)	612, 613
SchI	GAGTC	1 cut(s)	92
ScrFI	CCNGG	2 cut(s)	103, 419
SduI	GDGCHC	1 cut(s)	616
SetI	ASST	9 cut(s)	75, 165, 178, 184, 225, 357, 489, 631, 654
SfcI	CTRYAG	1 cut(s)	177
SfuI	TTCGAA	1 cut(s)	621
SmiMI	CAYNNNNRTG	1 cut(s)	473
SmlI	CTYRAG	2 cut(s)	398, 656
SmoI	CTYRAG	2 cut(s)	398, 656
Sse9I	AATT	4 cut(s)	91, 493, 623, 690
SsiI	CCGC	7 cut(s)	34, 232, 320, 371, 409, 426, 661
SspMI	CTAG	3 cut(s)	122, 716, 739
StyD4I	CCNGG	2 cut(s)	101, 417
StyI	CCWWGG	1 cut(s)	351
TaaI	ACNGT	1 cut(s)	516
TaqI	TCGA	2 cut(s)	621, 648
TasI	AATT	4 cut(s)	91, 493, 623, 690
TauI	GCSGC	1 cut(s)	235
TfiI	GAWTC	4 cut(s)	153, 325, 394, 499
TscAI	CASTG	2 cut(s)	317, 509
TseI	GCWGC	4 cut(s)	134, 137, 368, 637
TspDTI	ATGAA	1 cut(s)	497
TspRI	CASTG	2 cut(s)	317, 509
Van91I	CCANNNNNTGG	1 cut(s)	357
XapI	RAATTY	2 cut(s)	493, 690
XspI	CTAG	3 cut(s)	122, 716, 739

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