Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0002910

Physical Location & Seq

Genomic Coordinates Forward (+)

7565581 .. 7566366

Gene Structure 786 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG087100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGGCAGCTGCACGCAACATTCTTGGTAATGCAATAGGCAAGGCAGCTAAGGAGAAGGTTTTTAAGAAGTACATTGAGATTGAGTTGCAACTCGGAAATATTGATCGTTGTACGAAGTTGTATGAAAAGTATCTAGAGTGGTCACCCCATAATTGCTATGCATGGATCAAGTATGCAGAGTTAGAGACATCTTTGGGGGATACAGAACGAGCAAGGGCAATTTTTGAACTCGCAATCAGCCAATTAGAACTTGACAAGCCTGAATTGTTATGGAGGGCATACATCGATTTTGAACTGTCTGAATTTGAGTTTGAGAGAACTAGACAACTTTACGAGAGACTACTAGGCCGGACAAAACATGTAAAGGTGTGGAAGAGTTATGCAAAATTTGAGGCATCTGCTATGGTGGGAAATGGGGAGGATTCAGATTCAGCAAAAGCTCCTGCCGAGGGTAATCTTGTTGAAGAGAAGAAACAATGTATTGAATGTGGTAGAAGAGTTTTTGAGAAGGCTCTATACTATTTTAGAAATTCAAAACCTCAATTGAAGGAAGAAAGAAATATGTTGCTAGAAGAATGGTTGAATTTGGAAGCTAGCTTTGGGAAGCTGGGTGATATTAGCCTAGTTCAATCTAAGCTGCCAAAGAAACTGAAGAAGAGGAGGCCAATAGAAACTGAAGATGGTCCAGCTGGGTATGAGGAATACATTGATTACCTGTTCCCAGAAGAAAGTGAGACGACGAATCTCAAGATTTTAGAAGCTGCCTACAGGTGGAAGAAGAAGTGA

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

261

Amino Acids

30.55

Weight (kDa)

6.8

Isoelectric Point (pI)

53.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_C	PF23231	11 - 100	2.2e-07	Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat
HAT_Syf1_CNRKL1_N	PF23233	17 - 134	1.5e-08	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_PRP39_N	PF23240	21 - 130	3.3e-12	PRP39 N-terminal HAT repeat
Suf	PF05843	40 - 130	3.3e-07	Suppressor of forked protein (Suf)
HAT_PRP39_C	PF23241	89 - 133	3.1e-06	PRP39 C-terminal HAT repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0002910)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13210 AT5G41770 AT5G45990 AT5G45990
fragaria_vesca	FvH4_3g03250 FvH4_5g04070 FvH4_5g04070 FvH4_5g04070 FvH4_5g04070
malus_domestica	MD06G1102000.v1.1 MD14G1121300.v1.1
prunus_persica	Prupe.5G115100_v2.0.a1
pyrus_communis	pycom06g09690
rosa_chinensis	RchiOBHm_Chr5g0005001 RchiOBHm_Chr7g0195451
rosa_laevigata	RLG00000004120 RLG00000031279
rosa_multiflora	Rmu_co8413909.1_g000001 Rmu_sc0010714.1_g000003 Rmu_sc0016543.1_g000004 Rmu_sc0018163.1_g000001 Rmu_sc0020160.1_g000003
rosa_roxburghii	Rroxscaffold_3G00260470
rosa_rugosa	Rorug04G0415100 Rorug04G0460000 Rorug07G0023200
rosa_samantha	Rh5AG042700 Rh5BG042400 Rh5BG086900 Rh5BG087100 Rh5CG047200 Rh5DG042700 Rh7AG150800 Rh7BG152400 Rh7CG156000 Rh7DG151800
rosa_wichuraiana	Rw5G004150 Rw7G012870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	173
AcsI	RAATTY	4 cut(s)	302, 386, 529, 583
AcuI	CTGAAG	2 cut(s)	671, 696
AfaI	GTAC	2 cut(s)	71, 112
AfiI	CCNNNNNNNGG	2 cut(s)	449, 771
AflIII	ACRYGT	1 cut(s)	358
AgsI	TTSAA	8 cut(s)	227, 293, 464, 485, 534, 547, 583, 629
AjuI	GAANNNNNNNTTGG	2 cut(s)	582, 614
AluBI	AGCT	9 cut(s)	8, 47, 440, 593, 597, 607, 637, 689, 761
AluI	AGCT	9 cut(s)	8, 47, 440, 593, 597, 607, 637, 689, 761
Alw26I	GTCTC	3 cut(s)	179, 331, 728
AlwI	GGATC	1 cut(s)	173
AoxI	GGCC	2 cut(s)	346, 662
ApeKI	GCWGC	5 cut(s)	5, 8, 44, 637, 761
ApoI	RAATTY	4 cut(s)	302, 386, 529, 583
AspS9I	GGNCC	1 cut(s)	683
AsuHPI	GGTGA	2 cut(s)	135, 623
AsuNHI	GCTAGC	1 cut(s)	593
AvaII	GGWCC	1 cut(s)	683
BarI	GAAGNNNNNNTAC	2 cut(s)	500, 532
BbvI	GCAGC	4 cut(s)	17, 56, 624, 748
BccI	CCATC	1 cut(s)	674
BciVI	GTATCC	1 cut(s)	193
BcoDI	GTCTC	3 cut(s)	179, 331, 728
BfaI	CTAG	6 cut(s)	134, 321, 344, 569, 594, 623
BfmI	CTRYAG	1 cut(s)	766
BfuI	GTATCC	1 cut(s)	193
BisI	GCNGC	5 cut(s)	6, 9, 45, 638, 762
BlsI	GCNGC	5 cut(s)	7, 10, 46, 639, 763
Bme18I	GGWCC	1 cut(s)	683
BmgT120I	GGNCC	1 cut(s)	683
BmsI	GCATC	1 cut(s)	404
BmtI	GCTAGC	1 cut(s)	597
Bpu10I	CCTNAGC	1 cut(s)	48
BpuEI	CTTGAG	1 cut(s)	731
Bsa29I	ATCGAT	1 cut(s)	285
BsaJI	CCNNGG	1 cut(s)	447
Bsc4I	CCNNNNNNNGG	2 cut(s)	449, 771
BseCI	ATCGAT	1 cut(s)	285
BseDI	CCNNGG	1 cut(s)	447
BseLI	CCNNNNNNNGG	2 cut(s)	449, 771
BseRI	GAGGAG	1 cut(s)	673
BseXI	GCAGC	4 cut(s)	17, 56, 624, 748
BseYI	CCCAGC	2 cut(s)	607, 689
BshFI	GGCC	2 cut(s)	348, 664
BshVI	ATCGAT	1 cut(s)	285
BsiSI	CCGG	1 cut(s)	349
BslI	CCNNNNNNNGG	2 cut(s)	449, 771
BsmAI	GTCTC	3 cut(s)	179, 331, 728
BsmBI	CGTCTC	1 cut(s)	728
BsnI	GGCC	2 cut(s)	348, 664
Bsp143I	GATC	2 cut(s)	103, 165
BspANI	GGCC	2 cut(s)	348, 664
BspDI	ATCGAT	1 cut(s)	285
BspOI	GCTAGC	1 cut(s)	597
BspPI	GGATC	1 cut(s)	173
BssECI	CCNNGG	1 cut(s)	447
BssMI	GATC	2 cut(s)	103, 165
Bst4CI	ACNGT	1 cut(s)	297
Bst6I	CTCTTC	4 cut(s)	368, 459, 490, 650
BstC8I	GCNNGC	2 cut(s)	13, 595
BstDEI	CTNAG	2 cut(s)	48, 633
BstEII	GGTNACC	1 cut(s)	141
BstKTI	GATC	2 cut(s)	106, 168
BstMAI	GTCTC	3 cut(s)	179, 331, 728
BstMBI	GATC	2 cut(s)	103, 165
BstNSI	RCATGY	1 cut(s)	362
BstPI	GGTNACC	1 cut(s)	141
BstSFI	CTRYAG	1 cut(s)	766
BstV1I	GCAGC	4 cut(s)	17, 56, 624, 748
Bsu15I	ATCGAT	1 cut(s)	285
BsuI	GTATCC	1 cut(s)	193
BsuRI	GGCC	2 cut(s)	348, 664
BsuTUI	ATCGAT	1 cut(s)	285
Cac8I	GCNNGC	2 cut(s)	13, 595
Cfr13I	GGNCC	1 cut(s)	683
ClaI	ATCGAT	1 cut(s)	285
Csp6I	GTAC	2 cut(s)	70, 111
CviAII	CATG	2 cut(s)	162, 359
CviQI	GTAC	2 cut(s)	70, 111
DdeI	CTNAG	2 cut(s)	48, 633
DpnI	GATC	2 cut(s)	105, 167
DpnII	GATC	2 cut(s)	103, 165
Eam1104I	CTCTTC	4 cut(s)	368, 459, 490, 650
EarI	CTCTTC	4 cut(s)	368, 459, 490, 650
Eco47I	GGWCC	1 cut(s)	683
Eco57I	CTGAAG	2 cut(s)	671, 696
Eco91I	GGTNACC	1 cut(s)	141
EcoO65I	GGTNACC	1 cut(s)	141
EcoT22I	ATGCAT	1 cut(s)	163
Esp3I	CGTCTC	1 cut(s)	728
FaeI	CATG	2 cut(s)	165, 362
FatI	CATG	2 cut(s)	161, 358
Fnu4HI	GCNGC	5 cut(s)	6, 9, 45, 638, 762
Fsp4HI	GCNGC	5 cut(s)	6, 9, 45, 638, 762
FspBI	CTAG	6 cut(s)	134, 321, 344, 569, 594, 623
GluI	GCNGC	5 cut(s)	6, 9, 45, 638, 762
GsaI	CCCAGC	2 cut(s)	611, 693
HaeIII	GGCC	2 cut(s)	348, 664
HapII	CCGG	1 cut(s)	349
Hin1II	CATG	2 cut(s)	165, 362
HinfI	GANTC	3 cut(s)	422, 428, 742
HpaII	CCGG	1 cut(s)	349
HphI	GGTGA	2 cut(s)	135, 623
Hpy188I	TCNGA	3 cut(s)	95, 301, 427
Hpy188III	TCNNGA	2 cut(s)	134, 748
Hpy99I	CGWCG	1 cut(s)	742
HpyAV	CCTTC	3 cut(s)	49, 502, 541
HpyCH4III	ACNGT	1 cut(s)	297
HpyCH4V	TGCA	6 cut(s)	11, 32, 88, 161, 176, 383
HpyF3I	CTNAG	2 cut(s)	48, 633
Hsp92II	CATG	2 cut(s)	165, 362
Kzo9I	GATC	2 cut(s)	103, 165
LmnI	GCTCC	1 cut(s)	445
LpnPI	CCDG	9 cut(s)	273, 362, 456, 593, 675, 699, 728, 735, 754
Lsp1109I	GCAGC	4 cut(s)	17, 56, 624, 748
LweI	GCATC	1 cut(s)	404
MaeI	CTAG	6 cut(s)	134, 321, 344, 569, 594, 623
MaeIII	GTNAC	1 cut(s)	141
MalI	GATC	2 cut(s)	105, 167
MboI	GATC	2 cut(s)	103, 165
MfeI	CAATTG	1 cut(s)	542
MluCI	AATT	9 cut(s)	151, 219, 242, 263, 302, 386, 529, 542, 583
MnlI	CCTC	8 cut(s)	267, 385, 412, 442, 549, 651, 654, 691
Mph1103I	ATGCAT	1 cut(s)	163
MseI	TTAA	1 cut(s)	63
MspA1I	CMGCKG	2 cut(s)	8, 689
MspI	CCGG	1 cut(s)	349
MunI	CAATTG	1 cut(s)	542
NdeII	GATC	2 cut(s)	103, 165
NheI	GCTAGC	1 cut(s)	593
NlaIII	CATG	2 cut(s)	165, 362
NmeAIII	GCCGAG	1 cut(s)	472
NmuCI	GTSAC	1 cut(s)	141
NsiI	ATGCAT	1 cut(s)	163
NspI	RCATGY	1 cut(s)	362
PciI	ACATGT	1 cut(s)	358
PfeI	GAWTC	3 cut(s)	422, 428, 742
PkrI	GCNGC	5 cut(s)	7, 10, 46, 639, 763
PscI	ACATGT	1 cut(s)	358
PspEI	GGTNACC	1 cut(s)	141
PspFI	CCCAGC	2 cut(s)	607, 689
PspPI	GGNCC	1 cut(s)	683
PvuII	CAGCTG	2 cut(s)	8, 689
RsaI	GTAC	2 cut(s)	71, 112
RsaNI	GTAC	2 cut(s)	70, 111
SaqAI	TTAA	1 cut(s)	63
SatI	GCNGC	5 cut(s)	6, 9, 45, 638, 762
Sau3AI	GATC	2 cut(s)	103, 165
Sau96I	GGNCC	1 cut(s)	683
SfaNI	GCATC	1 cut(s)	404
SfcI	CTRYAG	1 cut(s)	766
SinI	GGWCC	1 cut(s)	683
SmlI	CTYRAG	1 cut(s)	746
SmoI	CTYRAG	1 cut(s)	746
Sse9I	AATT	9 cut(s)	151, 219, 242, 263, 302, 386, 529, 542, 583
SspI	AATATT	1 cut(s)	100
SspMI	CTAG	6 cut(s)	134, 321, 344, 569, 594, 623
TaaI	ACNGT	1 cut(s)	297
TaqI	TCGA	1 cut(s)	285
TasI	AATT	9 cut(s)	151, 219, 242, 263, 302, 386, 529, 542, 583
TatI	WGTACW	1 cut(s)	69
TfiI	GAWTC	3 cut(s)	422, 428, 742
Tru1I	TTAA	1 cut(s)	63
Tru9I	TTAA	1 cut(s)	63
TseFI	GTSAC	1 cut(s)	141
TseI	GCWGC	5 cut(s)	5, 8, 44, 637, 761
Tsp45I	GTSAC	1 cut(s)	141
TspDTI	ATGAA	1 cut(s)	138
VpaK11BI	GGWCC	1 cut(s)	683
XapI	RAATTY	4 cut(s)	302, 386, 529, 583
XbaI	TCTAGA	1 cut(s)	133
XceI	RCATGY	1 cut(s)	362
XspI	CTAG	6 cut(s)	134, 321, 344, 569, 594, 623
Zsp2I	ATGCAT	1 cut(s)	163

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