Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0001333

Physical Location & Seq

Genomic Coordinates Forward (+)

4490462 .. 4491501

Gene Structure 1040 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000031376

Sequence Viewer

CDS Protein Promoter (2k)

Length: 888 bp

ATGAAACTCCATGAGTCCTCGAGTCTCTGGACTTTATTTGTGGACTTGGAGGAGAGCTTTGGTACATTAGGGTCCACTCGGGCAGTGTACGAGAGAATATTGGATCTTAGAATAGCCACACCACAAATCATAATCAACCATGCATCCCTTCTGGAATTGAAGGAGCATAAGTATTTTGAAGATGCATTCAAAGTGTATGAAAAGGGCACCCAAATGTTCAAGTACCCGCATGTCAAAGACATATGGGTTACATATCTTTTGAAGTTTGCGAAGAGATATGGGGGGACACAAATGGAACGCGCAAGAGCGCTATTCGAGGATGCCGTTAAAGTGGCTCCTTCTGACGCAAAGAAACCTTTGTATCTTCAGTTTGCAAAGCTGGAGGAGGATTATGCAATTGAGGCTGTTCCGAAACATGACAAGTTGAGCGTGTATGAAATCTATATCGCCCGCGCAGAGGAGAGGCTTGGTGTCCCCAAGACAAGGAAGATATATGTGCAAGCAATAGAATCTGGTCTTCCACACAAGGATCTAGAGAAGAGCTTGGCTGAAATTGATCGTGCTCGGAGAGTATATGTATATGGATCACAGTTTTCACATCCACAATATGATGCGGATTTCTGGAACAAATGGCTCGAGTTTGAGGTGCAATACGGAAATGAGGATACTTGCGGAGATATGCTTCGAATCAAACGGAGTGTATCTGCAAGCTATAGCCAGACGGACTCTACATGCATTGAACTAGCGGAAGAAGAAACTGATTTCGAAGATGAGAAGTTGGTTGAGGTTTCACAAAAGGAGGTCCCGTTGGCTGTTTTTGGACATTTTGCTAACAAGAGAAAGGAGCCTGAAGATGATTCTCCCCAGAGCCGCTTTGGTGCACTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000349 GO:0000375 GO:0000377 GO:0000393 GO:0000398 GO:0000974 GO:0001701 GO:0001824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0006139 GO:0006259 GO:0006281 GO:0006283 GO:0006289 GO:0006351 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009058 GO:0009059 GO:0009790 GO:0009792 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0018130 GO:0019438 GO:0022607 GO:0022613 GO:0022618 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0033554 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043009 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048856 GO:0050896 GO:0051716 GO:0065003 GO:0071007 GO:0071010 GO:0071012 GO:0071013 GO:0071014 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

Suf

Protein Analysis

296

Amino Acids

34.23

Weight (kDa)

5.43

Isoelectric Point (pI)

44.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_C	PF23231	1 - 253	9.2e-101	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

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001333)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G28740
fragaria_vesca	FvH4_3g03910 FvH4_3g04150 FvH4_3g04150 FvH4_3g04150 FvH4_3g04150
malus_domestica	MD05G1324400.v1.1 MD10G1302200.v1.1
prunus_persica	Prupe.5G013200_v2.0.a1
pyrus_communis	pycom05g29860 pycom10g25470
rosa_chinensis	RchiOBHm_Chr5g0006181 RchiOBHm_Chr5g0006191 RchiOBHm_Chr5g0006201 RchiOBHm_Chr5g0006601 RchiOBHm_Chr7g0193971
rosa_laevigata	RLG00000004227 RLG00000031375 RLG00000031376 RLG00000031403
rosa_multiflora	Rmu_co7988368.1_g000001 Rmu_co8257165.1_g000001 Rmu_co8304153.1_g000001 Rmu_co8327759.1_g000001 Rmu_sc0001972.1_g000002 Rmu_sc0002389.1_g000006 Rmu_sc0004331.1_g000002 Rmu_sc0005583.1_g000001 Rmu_sc0009371.1_g000007 Rmu_sc0011154.1_g000005 Rmu_sc0024345.1_g000002 Rmu_sc0032392.1_g000001 Rmu_sc0032393.1_g000001
rosa_roxburghii	Rroxscaffold_1G00069420 Rroxscaffold_1G00069440 Rroxscaffold_1G00069800 Rroxscaffold_2G00122720 Rroxscaffold_3G00261670
rosa_rugosa	Rorug04G0422900
rosa_samantha	Rh5AG050200 Rh5BG046700 Rh5BG046800 Rh5BG049400 Rh5CG055400 Rh5CG055600 Rh5CG057800 Rh5DG046500 Rh5DG048800 Rh7AG139900 Rh7AG140000 Rh7DG141300
rosa_wichuraiana	Rw5G004790 Rw5G005020 Rw7G011940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	206
AccII	CGCG	2 cut(s)	300, 453
AciI	CCGC	6 cut(s)	227, 451, 614, 672, 746, 871
AclWI	GGATC	3 cut(s)	111, 537, 592
AcuI	CTGAAG	2 cut(s)	350, 870
AfaI	GTAC	3 cut(s)	64, 89, 224
AfeI	AGCGCT	1 cut(s)	309
AfiI	CCNNNNNNNGG	2 cut(s)	457, 483
AgsI	TTSAA	6 cut(s)	160, 179, 190, 220, 262, 740
AluBI	AGCT	4 cut(s)	57, 379, 543, 711
AluI	AGCT	4 cut(s)	57, 379, 543, 711
Alw21I	GWGCWC	2 cut(s)	565, 883
Alw26I	GTCTC	1 cut(s)	29
Alw44I	GTGCAC	1 cut(s)	879
AlwI	GGATC	3 cut(s)	111, 537, 592
Ama87I	CYCGRG	3 cut(s)	19, 78, 635
Aor51HI	AGCGCT	1 cut(s)	309
ApaLI	GTGCAC	1 cut(s)	879
AspLEI	GCGC	3 cut(s)	302, 310, 455
AspS9I	GGNCC	2 cut(s)	72, 802
AsuII	TTCGAA	2 cut(s)	685, 765
AvaI	CYCGRG	3 cut(s)	19, 78, 635
AvaII	GGWCC	2 cut(s)	72, 802
BaeGI	GKGCMC	2 cut(s)	209, 883
BaeI	ACNNNNGTAYC	2 cut(s)	344, 377
BanI	GGYRCC	1 cut(s)	206
BbsI	GAAGAC	1 cut(s)	509
Bbv12I	GWGCWC	2 cut(s)	565, 883
BceAI	ACGGC	1 cut(s)	308
BciVI	GTATCC	1 cut(s)	658
BcoDI	GTCTC	1 cut(s)	29
BfaI	CTAG	2 cut(s)	533, 743
BfmI	CTRYAG	1 cut(s)	712
BfoI	RGCGCY	1 cut(s)	311
BfuI	GTATCC	1 cut(s)	658
BisI	GCNGC	1 cut(s)	871
BlsI	GCNGC	1 cut(s)	872
Bme18I	GGWCC	2 cut(s)	72, 802
BmeT110I	CYCGRG	3 cut(s)	19, 78, 635
BmgT120I	GGNCC	2 cut(s)	72, 802
BmiI	GGNNCC	5 cut(s)	73, 208, 336, 804, 846
BmsI	GCATC	4 cut(s)	152, 172, 310, 601
BpiI	GAAGAC	1 cut(s)	509
BpmI	CTGGAG	1 cut(s)	401
Bpu14I	TTCGAA	2 cut(s)	685, 765
BsaXI	ACNNNNNCTCC	4 cut(s)	155, 185, 791, 821
Bsc4I	CCNNNNNNNGG	2 cut(s)	457, 483
BseGI	GGATG	3 cut(s)	143, 325, 598
BseLI	CCNNNNNNNGG	2 cut(s)	457, 483
BseRI	GAGGAG	3 cut(s)	65, 398, 473
BseSI	GKGCMC	2 cut(s)	209, 883
Bsh1236I	CGCG	2 cut(s)	300, 453
BshNI	GGYRCC	1 cut(s)	206
BsiHKAI	GWGCWC	2 cut(s)	565, 883
BsiHKCI	CYCGRG	3 cut(s)	19, 78, 635
BslFI	GGGAC	3 cut(s)	298, 458, 788
BslI	CCNNNNNNNGG	2 cut(s)	457, 483
BsmAI	GTCTC	1 cut(s)	29
BsmFI	GGGAC	3 cut(s)	298, 458, 788
BsmI	GAATGC	1 cut(s)	185
BsoBI	CYCGRG	3 cut(s)	19, 78, 635
Bsp119I	TTCGAA	2 cut(s)	685, 765
Bsp1286I	GDGCHC	3 cut(s)	209, 565, 883
Bsp143I	GATC	4 cut(s)	103, 529, 556, 584
BspACI	CCGC	6 cut(s)	227, 451, 614, 672, 746, 871
BspFNI	CGCG	2 cut(s)	300, 453
BspLI	GGNNCC	5 cut(s)	73, 208, 336, 804, 846
BspPI	GGATC	3 cut(s)	111, 537, 592
BspQI	GCTCTTC	1 cut(s)	533
BspT104I	TTCGAA	2 cut(s)	685, 765
BspT107I	GGYRCC	1 cut(s)	206
BssMI	GATC	4 cut(s)	103, 529, 556, 584
Bst4CI	ACNGT	1 cut(s)	591
Bst6I	CTCTTC	2 cut(s)	266, 533
BstBI	TTCGAA	2 cut(s)	685, 765
BstC8I	GCNNGC	3 cut(s)	451, 501, 709
BstDEI	CTNAG	1 cut(s)	107
BstF5I	GGATG	3 cut(s)	143, 325, 598
BstFNI	CGCG	2 cut(s)	300, 453
BstH2I	RGCGCY	1 cut(s)	311
BstHHI	GCGC	3 cut(s)	302, 310, 455
BstKTI	GATC	4 cut(s)	106, 532, 559, 587
BstMAI	GTCTC	1 cut(s)	29
BstMBI	GATC	4 cut(s)	103, 529, 556, 584
BstMWI	GCNNNNNNNGC	1 cut(s)	401
BstNSI	RCATGY	2 cut(s)	233, 735
BstSFI	CTRYAG	1 cut(s)	712
BstSLI	GKGCMC	2 cut(s)	209, 883
BstUI	CGCG	2 cut(s)	300, 453
BstV2I	GAAGAC	1 cut(s)	509
BstX2I	RGATCY	2 cut(s)	103, 529
BstYI	RGATCY	2 cut(s)	103, 529
BsuI	GTATCC	1 cut(s)	658
BtsCI	GGATG	3 cut(s)	143, 325, 598
BtsI	GCAGTG	1 cut(s)	90
BtsIMutI	CAGTG	1 cut(s)	90
Cac8I	GCNNGC	3 cut(s)	451, 501, 709
CfoI	GCGC	3 cut(s)	302, 310, 455
Cfr13I	GGNCC	2 cut(s)	72, 802
CseI	GACGC	1 cut(s)	353
Csp6I	GTAC	3 cut(s)	63, 88, 223
CviAII	CATG	5 cut(s)	11, 140, 230, 416, 732
CviQI	GTAC	3 cut(s)	63, 88, 223
DdeI	CTNAG	1 cut(s)	107
DpnI	GATC	4 cut(s)	105, 531, 558, 586
DpnII	GATC	4 cut(s)	103, 529, 556, 584
Eam1104I	CTCTTC	2 cut(s)	266, 533
EarI	CTCTTC	2 cut(s)	266, 533
Eco47I	GGWCC	2 cut(s)	72, 802
Eco47III	AGCGCT	1 cut(s)	309
Eco57I	CTGAAG	2 cut(s)	350, 870
Eco88I	CYCGRG	3 cut(s)	19, 78, 635
EcoO109I	RGGNCCY	1 cut(s)	802
EcoT22I	ATGCAT	3 cut(s)	145, 187, 737
FaeI	CATG	5 cut(s)	14, 143, 233, 419, 735
FaqI	GGGAC	3 cut(s)	298, 458, 788
FatI	CATG	5 cut(s)	10, 139, 229, 415, 731
FauI	CCCGC	2 cut(s)	234, 458
FauNDI	CATATG	1 cut(s)	242
Fnu4HI	GCNGC	1 cut(s)	871
FokI	GGATG	3 cut(s)	130, 332, 585
Fsp4HI	GCNGC	1 cut(s)	871
FspBI	CTAG	2 cut(s)	533, 743
GlaI	GCGC	3 cut(s)	301, 309, 454
GluI	GCNGC	1 cut(s)	871
GsuI	CTGGAG	1 cut(s)	401
HaeII	RGCGCY	1 cut(s)	311
HgaI	GACGC	1 cut(s)	353
HhaI	GCGC	3 cut(s)	302, 310, 455
Hin1II	CATG	5 cut(s)	14, 143, 233, 419, 735
Hin6I	GCGC	3 cut(s)	300, 308, 453
HinP1I	GCGC	3 cut(s)	300, 308, 453
HinfI	GANTC	6 cut(s)	14, 22, 509, 687, 725, 857
Hpy166II	GTNNAC	4 cut(s)	43, 75, 88, 881
Hpy188I	TCNGA	3 cut(s)	343, 411, 567
Hpy188III	TCNNGA	4 cut(s)	28, 152, 533, 622
Hpy8I	GTNNAC	4 cut(s)	43, 75, 88, 881
HpyAV	CCTTC	3 cut(s)	154, 158, 348
HpyCH4III	ACNGT	1 cut(s)	591
HpyCH4V	TGCA	9 cut(s)	143, 185, 374, 395, 499, 649, 707, 735, 881
HpyF10VI	GCNNNNNNNGC	1 cut(s)	401
HpyF3I	CTNAG	1 cut(s)	107
Hsp92II	CATG	5 cut(s)	14, 143, 233, 419, 735
HspAI	GCGC	3 cut(s)	300, 308, 453
Kzo9I	GATC	4 cut(s)	103, 529, 556, 584
LguI	GCTCTTC	1 cut(s)	533
LmnI	GCTCC	3 cut(s)	163, 340, 844
LpnPI	CCDG	8 cut(s)	13, 137, 365, 498, 607, 731, 861, 878
LweI	GCATC	4 cut(s)	152, 172, 310, 601
MaeI	CTAG	2 cut(s)	533, 743
MaeIII	GTNAC	1 cut(s)	247
MalI	GATC	4 cut(s)	105, 531, 558, 586
MboI	GATC	4 cut(s)	103, 529, 556, 584
MfeI	CAATTG	1 cut(s)	396
MflI	RGATCY	2 cut(s)	103, 529
MhlI	GDGCHC	3 cut(s)	209, 565, 883
MluCI	AATT	3 cut(s)	155, 396, 552
MlyI	GAGTC	3 cut(s)	23, 31, 719
Mph1103I	ATGCAT	3 cut(s)	145, 187, 737
MseI	TTAA	1 cut(s)	327
MslI	CAYNNNNRTG	1 cut(s)	212
MunI	CAATTG	1 cut(s)	396
Mva1269I	GAATGC	1 cut(s)	185
MvnI	CGCG	2 cut(s)	300, 453
MwoI	GCNNNNNNNGC	1 cut(s)	401
NdeI	CATATG	1 cut(s)	242
NdeII	GATC	4 cut(s)	103, 529, 556, 584
NlaIII	CATG	5 cut(s)	14, 143, 233, 419, 735
NlaIV	GGNNCC	5 cut(s)	73, 208, 336, 804, 846
NsiI	ATGCAT	3 cut(s)	145, 187, 737
NspI	RCATGY	2 cut(s)	233, 735
NspV	TTCGAA	2 cut(s)	685, 765
PaeR7I	CTCGAG	2 cut(s)	19, 635
PciSI	GCTCTTC	1 cut(s)	533
PcsI	WCGNNNNNNNCGW	1 cut(s)	321
PctI	GAATGC	1 cut(s)	185
PfeI	GAWTC	3 cut(s)	509, 687, 857
PkrI	GCNGC	1 cut(s)	872
PleI	GAGTC	3 cut(s)	22, 30, 719
PpsI	GAGTC	3 cut(s)	22, 30, 719
PpuMI	RGGWCCY	1 cut(s)	802
Psp5II	RGGWCCY	1 cut(s)	802
PspN4I	GGNNCC	5 cut(s)	73, 208, 336, 804, 846
PspPI	GGNCC	2 cut(s)	72, 802
PspPPI	RGGWCCY	1 cut(s)	802
PspXI	VCTCGAGB	2 cut(s)	19, 635
PsuI	RGATCY	2 cut(s)	103, 529
RsaI	GTAC	3 cut(s)	64, 89, 224
RsaNI	GTAC	3 cut(s)	63, 88, 223
RseI	CAYNNNNRTG	1 cut(s)	212
SapI	GCTCTTC	1 cut(s)	533
SaqAI	TTAA	1 cut(s)	327
SatI	GCNGC	1 cut(s)	871
Sau3AI	GATC	4 cut(s)	103, 529, 556, 584
Sau96I	GGNCC	2 cut(s)	72, 802
SchI	GAGTC	3 cut(s)	23, 31, 719
SduI	GDGCHC	3 cut(s)	209, 565, 883
SetI	ASST	8 cut(s)	59, 358, 381, 545, 648, 713, 789, 804
SfaNI	GCATC	4 cut(s)	152, 172, 310, 601
SfcI	CTRYAG	1 cut(s)	712
Sfr274I	CTCGAG	2 cut(s)	19, 635
SfuI	TTCGAA	2 cut(s)	685, 765
SinI	GGWCC	2 cut(s)	72, 802
SlaI	CTCGAG	2 cut(s)	19, 635
SmiMI	CAYNNNNRTG	1 cut(s)	212
SmlI	CTYRAG	2 cut(s)	19, 635
SmoI	CTYRAG	2 cut(s)	19, 635
Sse9I	AATT	3 cut(s)	155, 396, 552
SsiI	CCGC	6 cut(s)	227, 451, 614, 672, 746, 871
SspI	AATATT	1 cut(s)	99
SspMI	CTAG	2 cut(s)	533, 743
TaaI	ACNGT	1 cut(s)	591
TaqI	TCGA	5 cut(s)	20, 315, 636, 685, 765
TasI	AATT	3 cut(s)	155, 396, 552
TauI	GCSGC	1 cut(s)	873
TfiI	GAWTC	3 cut(s)	509, 687, 857
Tru1I	TTAA	1 cut(s)	327
Tru9I	TTAA	1 cut(s)	327
TscAI	CASTG	1 cut(s)	90
TspDTI	ATGAA	3 cut(s)	17, 213, 450
TspGWI	ACGGA	3 cut(s)	669, 709, 737
TspRI	CASTG	1 cut(s)	90
VneI	GTGCAC	1 cut(s)	879
VpaK11BI	GGWCC	2 cut(s)	72, 802
XbaI	TCTAGA	1 cut(s)	532
XceI	RCATGY	2 cut(s)	233, 735
XcmI	CCANNNNNNNNNTGG	1 cut(s)	872
XhoI	CTCGAG	2 cut(s)	19, 635
XspI	CTAG	2 cut(s)	533, 743
Zsp2I	ATGCAT	3 cut(s)	145, 187, 737

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