Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0001333

Physical Location & Seq

Genomic Coordinates Forward (+)

4489344 .. 4490260

Gene Structure 917 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000031375

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGTCGATCTCTCAAGACCTATACCCCTCACAAGACGACCTTCTCTACGAAGAAGAGCTTCTCCGAAACCCCTATAGCCTCAAGCTATGGTGGCGCTACCTGATTGCCCGATCCGACGCTTCGTTCGACAAGAGTAGAATGAACTACCAGCGCGCCATCAAGGCCCTCCCCCGAAGCTACAAGCTTTGGCACGCTTACCTTCTAGAAAGCCTTGAACTCGCTCGCAACAATCACTCCGACCTAGTCACAATGCACAAGATGCCGCTGATTTGGCTTATGTATTTGCAGAGCCTGACGGAGCAGAAATTGATCACCCGGACTCGCCGGACTTTCAACAGAGCGCTGTGTGCTCTTCCCGTGCAGCTGCGCGACCGCGTGTGGGAGCTCTACCTTGCCTTCGTTAGTCAGAAGGATTCTAGTCTTTGGCAAGAGGCGGCGGAGAAGCTCGCCTCGGTGTTGAATGATGATGAGTTTTGTTCAGTAAAGGGGAAAACCAAGCAGACGCTGTGGTTGGAATATTGTGGTTTGCTTGCTAGGCACGGTACCAAGAGGGGGATTAAGACATTTAAAGACGAGGTGGGGAGTCTGTGGACGTCGTTGGCTGACTATTACATTAAAATGAGCTTATTTGAGAAGGCTAGGGATGTGTTTGAGGAGGCTATGCAAAGTGTGGTGACTGTGAGAGATTTTAGTGTTGTTTTCGATTCGTATGTTCAATTTTTAGAGAGTTTCATTGCCATAAAGATGGAGATGTGA

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

252

Amino Acids

29.71

Weight (kDa)

8.29

Isoelectric Point (pI)

56.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_N	PF23233	12 - 139	4.1e-35	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_Syf1_M	PF23220	138 - 250	3.9e-38	Pre-mRNA-splicing factor SYF1 middle 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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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)
AatII	GACGTC	1 cut(s)	596
Acc65I	GGTACC	1 cut(s)	542
AccB1I	GGYRCC	1 cut(s)	542
AccII	CGCG	3 cut(s)	153, 369, 375
AciI	CCGC	4 cut(s)	263, 373, 434, 437
AclWI	GGATC	1 cut(s)	105
AcyI	GRCGYC	1 cut(s)	593
AfaI	GTAC	1 cut(s)	544
AfeI	AGCGCT	1 cut(s)	342
AfiI	CCNNNNNNNGG	2 cut(s)	379, 552
AgsI	TTSAA	4 cut(s)	215, 334, 460, 716
AluBI	AGCT	8 cut(s)	58, 85, 177, 184, 364, 385, 445, 624
AluI	AGCT	8 cut(s)	58, 85, 177, 184, 364, 385, 445, 624
Alw21I	GWGCWC	2 cut(s)	352, 387
AlwI	GGATC	1 cut(s)	105
AlwNI	CAGNNNCTG	2 cut(s)	292, 505
Aor51HI	AGCGCT	1 cut(s)	342
AoxI	GGCC	1 cut(s)	162
ApeKI	GCWGC	2 cut(s)	361, 364
ArsI	GACNNNNNNTTYG	2 cut(s)	107, 139
Asp700I	GAANNNNTTC	1 cut(s)	57
Asp718I	GGTACC	1 cut(s)	542
AspLEI	GCGC	5 cut(s)	96, 153, 155, 343, 369
AspS9I	GGNCC	1 cut(s)	163
AsuC2I	CCSGG	1 cut(s)	316
AsuHPI	GGTGA	2 cut(s)	304, 685
BanI	GGYRCC	1 cut(s)	542
BanII	GRGCYC	1 cut(s)	387
Bbv12I	GWGCWC	2 cut(s)	352, 387
BbvI	GCAGC	2 cut(s)	351, 373
BccI	CCATC	2 cut(s)	164, 739
BclI	TGATCA	1 cut(s)	309
BcnI	CCSGG	1 cut(s)	316
BfaI	CTAG	5 cut(s)	203, 242, 417, 534, 639
BfmI	CTRYAG	1 cut(s)	73
BfoI	RGCGCY	2 cut(s)	97, 344
BglI	GCCNNNNNGGC	1 cut(s)	161
BisI	GCNGC	4 cut(s)	263, 362, 365, 435
BlsI	GCNGC	4 cut(s)	264, 363, 366, 436
Bme1390I	CCNGG	1 cut(s)	316
BmgT120I	GGNCC	1 cut(s)	163
BmiI	GGNNCC	1 cut(s)	544
BmrFI	CCNGG	1 cut(s)	316
BmsI	GCATC	1 cut(s)	249
BpuEI	CTTGAG	1 cut(s)	65
BpuMI	CCSGG	1 cut(s)	316
BsaHI	GRCGYC	1 cut(s)	593
BsaJI	CCNNGG	1 cut(s)	450
BsaXI	ACNNNNNCTCC	2 cut(s)	218, 248
Bsc4I	CCNNNNNNNGG	2 cut(s)	379, 552
Bse3DI	GCAATG	1 cut(s)	732
BseDI	CCNNGG	1 cut(s)	450
BseGI	GGATG	1 cut(s)	649
BseLI	CCNNNNNNNGG	2 cut(s)	379, 552
BseMI	GCAATG	1 cut(s)	732
BsePI	GCGCGC	1 cut(s)	151
BseRI	GAGGAG	1 cut(s)	668
BseXI	GCAGC	2 cut(s)	351, 373
BsgI	GTGCAG	1 cut(s)	380
Bsh1236I	CGCG	3 cut(s)	153, 369, 375
Bsh1285I	CGRYCG	1 cut(s)	373
BshFI	GGCC	1 cut(s)	164
BshNI	GGYRCC	1 cut(s)	542
BsiEI	CGRYCG	1 cut(s)	373
BsiHKAI	GWGCWC	2 cut(s)	352, 387
BsiSI	CCGG	2 cut(s)	316, 325
BslI	CCNNNNNNNGG	2 cut(s)	379, 552
BsnI	GGCC	1 cut(s)	164
Bsp1286I	GDGCHC	2 cut(s)	352, 387
Bsp143I	GATC	3 cut(s)	6, 110, 309
BspACI	CCGC	4 cut(s)	263, 373, 434, 437
BspANI	GGCC	1 cut(s)	164
BspFNI	CGCG	3 cut(s)	153, 369, 375
BspLI	GGNNCC	1 cut(s)	544
BspPI	GGATC	1 cut(s)	105
BspQI	GCTCTTC	2 cut(s)	48, 357
BspT107I	GGYRCC	1 cut(s)	542
BsrDI	GCAATG	1 cut(s)	732
BssECI	CCNNGG	1 cut(s)	450
BssHII	GCGCGC	1 cut(s)	151
BssMI	GATC	3 cut(s)	6, 110, 309
BssNI	GRCGYC	1 cut(s)	593
Bst4CI	ACNGT	2 cut(s)	542, 679
Bst6I	CTCTTC	2 cut(s)	48, 357
BstACI	GRCGYC	1 cut(s)	593
BstAPI	GCANNNNNTGC	1 cut(s)	259
BstC8I	GCNNGC	5 cut(s)	153, 192, 223, 447, 531
BstF5I	GGATG	1 cut(s)	649
BstFNI	CGCG	3 cut(s)	153, 369, 375
BstH2I	RGCGCY	2 cut(s)	97, 344
BstHHI	GCGC	5 cut(s)	96, 153, 155, 343, 369
BstKTI	GATC	3 cut(s)	9, 113, 312
BstMBI	GATC	3 cut(s)	6, 110, 309
BstMCI	CGRYCG	1 cut(s)	373
BstMWI	GCNNNNNNNGC	6 cut(s)	91, 161, 259, 271, 347, 535
BstSCI	CCNGG	1 cut(s)	314
BstSFI	CTRYAG	1 cut(s)	73
BstUI	CGCG	3 cut(s)	153, 369, 375
BstV1I	GCAGC	2 cut(s)	351, 373
BstXI	CCANNNNNNTGG	1 cut(s)	745
BsuRI	GGCC	1 cut(s)	164
BtsCI	GGATG	1 cut(s)	649
Cac8I	GCNNGC	5 cut(s)	153, 192, 223, 447, 531
CaiI	CAGNNNCTG	2 cut(s)	292, 505
CfoI	GCGC	5 cut(s)	96, 153, 155, 343, 369
Cfr13I	GGNCC	1 cut(s)	163
CseI	GACGC	2 cut(s)	125, 511
Csp6I	GTAC	1 cut(s)	543
CviQI	GTAC	1 cut(s)	543
DpnI	GATC	3 cut(s)	8, 112, 311
DpnII	GATC	3 cut(s)	6, 110, 309
DraI	TTTAAA	1 cut(s)	568
Eam1104I	CTCTTC	2 cut(s)	48, 357
EarI	CTCTTC	2 cut(s)	48, 357
EciI	GGCGGA	1 cut(s)	452
Ecl136II	GAGCTC	1 cut(s)	385
Eco24I	GRGCYC	1 cut(s)	387
Eco47III	AGCGCT	1 cut(s)	342
Eco53kI	GAGCTC	1 cut(s)	385
EcoICRI	GAGCTC	1 cut(s)	385
EcoO109I	RGGNCCY	1 cut(s)	163
EcoT38I	GRGCYC	1 cut(s)	387
FaiI	YATR	7 cut(s)	22, 75, 88, 278, 662, 711, 740
FalI	AAGNNNNNCTT	4 cut(s)	24, 56, 42, 74
FbaI	TGATCA	1 cut(s)	309
Fnu4HI	GCNGC	4 cut(s)	263, 362, 365, 435
FokI	GGATG	1 cut(s)	656
FriOI	GRGCYC	1 cut(s)	387
Fsp4HI	GCNGC	4 cut(s)	263, 362, 365, 435
FspBI	CTAG	5 cut(s)	203, 242, 417, 534, 639
GlaI	GCGC	5 cut(s)	95, 152, 154, 342, 368
GluI	GCNGC	4 cut(s)	263, 362, 365, 435
HaeII	RGCGCY	2 cut(s)	97, 344
HaeIII	GGCC	1 cut(s)	164
HapII	CCGG	2 cut(s)	316, 325
HgaI	GACGC	2 cut(s)	125, 511
HhaI	GCGC	5 cut(s)	96, 153, 155, 343, 369
Hin1I	GRCGYC	1 cut(s)	593
Hin6I	GCGC	5 cut(s)	94, 151, 153, 341, 367
HinP1I	GCGC	5 cut(s)	94, 151, 153, 341, 367
HindIII	AAGCTT	1 cut(s)	182
HinfI	GANTC	4 cut(s)	319, 413, 583, 704
HpaII	CCGG	2 cut(s)	316, 325
HphI	GGTGA	2 cut(s)	304, 685
Hpy166II	GTNNAC	1 cut(s)	591
Hpy188I	TCNGA	4 cut(s)	65, 115, 238, 408
Hpy188III	TCNNGA	2 cut(s)	14, 203
Hpy8I	GTNNAC	1 cut(s)	591
Hpy99I	CGWCG	2 cut(s)	119, 598
HpyAV	CCTTC	5 cut(s)	50, 209, 403, 406, 628
HpyCH4III	ACNGT	2 cut(s)	542, 679
HpyCH4IV	ACGT	1 cut(s)	593
HpyCH4V	TGCA	4 cut(s)	253, 286, 361, 664
HpyF10VI	GCNNNNNNNGC	6 cut(s)	91, 161, 259, 271, 347, 535
HpySE526I	ACGT	1 cut(s)	593
Hsp92I	GRCGYC	1 cut(s)	593
HspAI	GCGC	5 cut(s)	94, 151, 153, 341, 367
KpnI	GGTACC	1 cut(s)	546
Ksp22I	TGATCA	1 cut(s)	309
Kzo9I	GATC	3 cut(s)	6, 110, 309
LguI	GCTCTTC	2 cut(s)	48, 357
LmnI	GCTCC	2 cut(s)	298, 382
LpnPI	CCDG	5 cut(s)	113, 161, 305, 329, 338
Lsp1109I	GCAGC	2 cut(s)	351, 373
LweI	GCATC	1 cut(s)	249
MaeI	CTAG	5 cut(s)	203, 242, 417, 534, 639
MaeII	ACGT	1 cut(s)	593
MaeIII	GTNAC	2 cut(s)	244, 673
MalI	GATC	3 cut(s)	8, 112, 311
MboI	GATC	3 cut(s)	6, 110, 309
MboII	GAAGA	3 cut(s)	62, 65, 344
MhlI	GDGCHC	2 cut(s)	352, 387
MluCI	AATT	2 cut(s)	305, 716
MlyI	GAGTC	2 cut(s)	313, 592
MmeI	TCCRAC	3 cut(s)	138, 261, 492
MnlI	CCTC	9 cut(s)	37, 89, 176, 424, 460, 543, 568, 646, 649
MroXI	GAANNNNTTC	1 cut(s)	57
MseI	TTAA	3 cut(s)	558, 567, 615
MslI	CAYNNNNRTG	2 cut(s)	617, 743
MspA1I	CMGCKG	2 cut(s)	265, 364
MspI	CCGG	2 cut(s)	316, 325
MspR9I	CCNGG	1 cut(s)	316
MvnI	CGCG	3 cut(s)	153, 369, 375
MwoI	GCNNNNNNNGC	6 cut(s)	91, 161, 259, 271, 347, 535
NciI	CCSGG	1 cut(s)	316
NdeII	GATC	3 cut(s)	6, 110, 309
NlaIV	GGNNCC	1 cut(s)	544
NmuCI	GTSAC	2 cut(s)	244, 673
PauI	GCGCGC	1 cut(s)	151
PciSI	GCTCTTC	2 cut(s)	48, 357
PcsI	WCGNNNNNNNCGW	1 cut(s)	123
PdmI	GAANNNNTTC	1 cut(s)	57
PfeI	GAWTC	2 cut(s)	413, 704
PflFI	GACNNNGTC	1 cut(s)	242
PkrI	GCNGC	4 cut(s)	264, 363, 366, 436
PleI	GAGTC	2 cut(s)	313, 591
PpsI	GAGTC	2 cut(s)	313, 591
Psp124BI	GAGCTC	1 cut(s)	387
PspN4I	GGNNCC	1 cut(s)	544
PspPI	GGNCC	1 cut(s)	163
PstNI	CAGNNNCTG	2 cut(s)	292, 505
PsyI	GACNNNGTC	1 cut(s)	242
PteI	GCGCGC	1 cut(s)	151
PvuII	CAGCTG	1 cut(s)	364
RsaI	GTAC	1 cut(s)	544
RsaNI	GTAC	1 cut(s)	543
RseI	CAYNNNNRTG	2 cut(s)	617, 743
SacI	GAGCTC	1 cut(s)	387
SapI	GCTCTTC	2 cut(s)	48, 357
SaqAI	TTAA	3 cut(s)	558, 567, 615
SatI	GCNGC	4 cut(s)	263, 362, 365, 435
Sau3AI	GATC	3 cut(s)	6, 110, 309
Sau96I	GGNCC	1 cut(s)	163
SchI	GAGTC	2 cut(s)	313, 592
ScrFI	CCNGG	1 cut(s)	316
SduI	GDGCHC	2 cut(s)	352, 387
SfaNI	GCATC	1 cut(s)	249
SfcI	CTRYAG	1 cut(s)	73
SmiMI	CAYNNNNRTG	2 cut(s)	617, 743
SmlI	CTYRAG	2 cut(s)	12, 80
SmoI	CTYRAG	2 cut(s)	12, 80
Sse9I	AATT	2 cut(s)	305, 716
SsiI	CCGC	4 cut(s)	263, 373, 434, 437
SspI	AATATT	1 cut(s)	518
SspMI	CTAG	5 cut(s)	203, 242, 417, 534, 639
SstI	GAGCTC	1 cut(s)	387
StyD4I	CCNGG	1 cut(s)	314
TaaI	ACNGT	2 cut(s)	542, 679
TaiI	ACGT	1 cut(s)	596
TaqI	TCGA	3 cut(s)	5, 126, 702
TasI	AATT	2 cut(s)	305, 716
TauI	GCSGC	2 cut(s)	265, 437
TfiI	GAWTC	2 cut(s)	413, 704
Tru1I	TTAA	3 cut(s)	558, 567, 615
Tru9I	TTAA	3 cut(s)	558, 567, 615
TseFI	GTSAC	2 cut(s)	244, 673
TseI	GCWGC	2 cut(s)	361, 364
Tsp45I	GTSAC	2 cut(s)	244, 673
TspDTI	ATGAA	2 cut(s)	155, 721
TspGWI	ACGGA	1 cut(s)	311
Tth111I	GACNNNGTC	1 cut(s)	242
XbaI	TCTAGA	1 cut(s)	202
XmnI	GAANNNNTTC	1 cut(s)	57
XspI	CTAG	5 cut(s)	203, 242, 417, 534, 639
ZraI	GACGTC	1 cut(s)	594

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