Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0016249

Physical Location & Seq

Genomic Coordinates Forward (+)

64795546 .. 64801615

Gene Structure 6070 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG379500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGGTATATGACGAGATTGTGGCTGTTGAGAGGCGGAACAGGGATTGGAGAAGGGTTCACTATGAGCAAGAGGTCAGAAACAATCCTCTGAATTACGACTCCTGGCTCGCTTACATAGGGCTAGAAGAGAGTGCTGCTGCGAATAAGCACCGAATCAGAGAGCTGTTCCGGCGAGCTACAGCTAATGTTCCTCCGGTGCCGGAGTTGTACCGGGACGGGAAGCTTCGGTGGCGGCGCTATGTTGATTTGTGGATCTATTATGCAACTTATGAGGAGGGTTCCGGAGGAGACGCGAGACAAGTTTATGAGCAGTGCCTTGCGGTGATTCCTCATGACAAGTTCTCGTTTGCCAAGGTTTGGCTTCTTGCAGCGGGTTTGGAGTTACGACAGGGGAGTCTCAAGGGTGCGCGCAAGATCCTGGCCACTGCCATGAGAACGGCACCAAAACCCAAGATATTTAGCAAGTGCATTGAGATGGAGATGAAGCTTGGGAATTTCAATCTGTGTCGGAAACTGTACGAGAAGTATGTGTGTTGGAAACCACAGAACTGGGATGGTTGGGTCAAGTACGCAGAGTTTGAGAGAGCATTGGGGGAGACAGAACGAGTGAGGGCCCTTTTCGAATTGGGTATCCAGCAGCCGGAAACCGACCTTCTTGAGCGGTTGTGGTCGGCGTACATTGATTTTGAAATATCCGAGGGGGAGTTTGAGAGAACTAGAAAACTCTACGAGAGACTACTAGACTGCTCAAAGGACGTCCGGGTCTGGATCAGTTATGCAAGGTTTGAGGCACAAGAGAACCATTCTATTGAACATACTAGAATGGTTTTCAGTAGAGCTGCTTGCTATTTAAAAGCTTGGGGTCGAAGTCAGGAGGAGAGGAATATGTTGGGACAAGTATGGTTGGATATGGAGGCTAGCTTTGGCGATCTGGGCCTCAAGAGTTGGATTAAGATGTTCAAAATAGAAGAAAAAAGTTAA

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

326

Amino Acids

38.79

Weight (kDa)

8.58

Isoelectric Point (pI)

46.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_N	PF23233	19 - 182	2.9e-09	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_Syf1_CNRKL1_C	PF23231	81 - 241	3.1e-13	Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat
HAT_PRP39_N	PF23240	154 - 249	9.1e-12	PRP39 N-terminal HAT repeat
HAT_Syf1_CNRKL1_N	PF23233	172 - 281	4.1e-08	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_PRP39_C	PF23241	222 - 284	5e-13	PRP39 C-terminal HAT repeat
HAT	PF02184	235 - 263	4.7e-06	HAT (Half-A-TPR) 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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Publication-ready

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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)
AasI	GACNNNNNNGTC	2 cut(s)	393, 761
AatII	GACGTC	1 cut(s)	759
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
AccIII	TCCGGA	1 cut(s)	281
AciI	CCGC	5 cut(s)	34, 232, 320, 371, 661
AclWI	GGATC	3 cut(s)	260, 409, 776
AcoI	YGGCCR	1 cut(s)	420
AcsI	RAATTY	1 cut(s)	493
AcyI	GRCGYC	1 cut(s)	756
AfaI	GTAC	4 cut(s)	209, 518, 569, 677
AfiI	CCNNNNNNNGG	2 cut(s)	357, 640
AgsI	TTSAA	4 cut(s)	499, 689, 812, 961
AjnI	CCWGG	2 cut(s)	101, 417
AluBI	AGCT	8 cut(s)	163, 176, 182, 223, 487, 839, 857, 921
AluI	AGCT	8 cut(s)	163, 176, 182, 223, 487, 839, 857, 921
Alw26I	GTCTC	5 cut(s)	282, 289, 401, 590, 727
AlwI	GGATC	3 cut(s)	260, 409, 776
Aor13HI	TCCGGA	1 cut(s)	281
AoxI	GGCC	3 cut(s)	420, 612, 934
ApaI	GGGCCC	1 cut(s)	616
ApeKI	GCWGC	5 cut(s)	134, 137, 368, 637, 839
ApoI	RAATTY	1 cut(s)	493
AspLEI	GCGC	3 cut(s)	237, 409, 411
AspS9I	GGNCC	3 cut(s)	612, 613, 934
AsuC2I	CCSGG	2 cut(s)	212, 761
AsuHPI	GGTGA	1 cut(s)	334
AsuII	TTCGAA	1 cut(s)	621
AsuNHI	GCTAGC	1 cut(s)	917
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	5 cut(s)	121, 124, 380, 649, 826
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
BcnI	CCSGG	2 cut(s)	212, 761
BcoDI	GTCTC	5 cut(s)	282, 289, 401, 590, 727
BfaI	CTAG	5 cut(s)	122, 717, 740, 819, 918
BfmI	CTRYAG	1 cut(s)	177
BfoI	RGCGCY	1 cut(s)	238
BfuI	GTATCC	1 cut(s)	641
BisI	GCNGC	6 cut(s)	135, 138, 233, 369, 638, 840
BlsI	GCNGC	6 cut(s)	136, 139, 234, 370, 639, 841
Bme1390I	CCNGG	4 cut(s)	103, 212, 419, 761
BmgT120I	GGNCC	3 cut(s)	612, 613, 934
BmiI	GGNNCC	4 cut(s)	198, 280, 441, 614
BmrFI	CCNGG	4 cut(s)	103, 212, 419, 761
BmrI	ACTGGG	1 cut(s)	559
BmtI	GCTAGC	1 cut(s)	921
BmuI	ACTGGG	1 cut(s)	559
Bpu14I	TTCGAA	1 cut(s)	621
BpuEI	CTTGAG	3 cut(s)	383, 677, 923
BpuMI	CCSGG	2 cut(s)	212, 761
BsaHI	GRCGYC	1 cut(s)	756
BsaJI	CCNNGG	2 cut(s)	351, 696
BsaWI	WCCGGW	2 cut(s)	193, 281
Bsc4I	CCNNNNNNNGG	2 cut(s)	357, 640
Bse1I	ACTGG	1 cut(s)	554
BseAI	TCCGGA	1 cut(s)	281
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
BsePI	GCGCGC	1 cut(s)	407
BseRI	GAGGAG	3 cut(s)	287, 300, 890
BseSI	GKGCMC	1 cut(s)	616
BseXI	GCAGC	5 cut(s)	121, 124, 380, 649, 826
Bsh1236I	CGCG	2 cut(s)	293, 409
BshFI	GGCC	3 cut(s)	422, 614, 936
BshNI	GGYRCC	2 cut(s)	196, 439
BsiSI	CCGG	7 cut(s)	169, 194, 200, 211, 282, 641, 760
BslFI	GGGAC	2 cut(s)	227, 906
BslI	CCNNNNNNNGG	2 cut(s)	357, 640
BsmAI	GTCTC	5 cut(s)	282, 289, 401, 590, 727
BsmBI	CGTCTC	1 cut(s)	282
BsmFI	GGGAC	2 cut(s)	227, 906
BsnI	GGCC	3 cut(s)	422, 614, 936
Bsp119I	TTCGAA	1 cut(s)	621
Bsp120I	GGGCCC	1 cut(s)	612
Bsp1286I	GDGCHC	1 cut(s)	616
Bsp13I	TCCGGA	1 cut(s)	281
Bsp143I	GATC	4 cut(s)	252, 414, 768, 928
BspACI	CCGC	5 cut(s)	34, 232, 320, 371, 661
BspANI	GGCC	3 cut(s)	422, 614, 936
BspEI	TCCGGA	1 cut(s)	281
BspFNI	CGCG	2 cut(s)	293, 409
BspHI	TCATGA	1 cut(s)	331
BspLI	GGNNCC	4 cut(s)	198, 280, 441, 614
BspOI	GCTAGC	1 cut(s)	921
BspPI	GGATC	3 cut(s)	260, 409, 776
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
BssHII	GCGCGC	1 cut(s)	407
BssMI	GATC	4 cut(s)	252, 414, 768, 928
BssNI	GRCGYC	1 cut(s)	756
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
BstACI	GRCGYC	1 cut(s)	756
BstBI	TTCGAA	1 cut(s)	621
BstC8I	GCNNGC	5 cut(s)	108, 174, 409, 844, 919
BstF5I	GGATG	1 cut(s)	559
BstFNI	CGCG	2 cut(s)	293, 409
BstH2I	RGCGCY	1 cut(s)	238
BstHHI	GCGC	3 cut(s)	237, 409, 411
BstKTI	GATC	4 cut(s)	255, 417, 771, 931
BstMAI	GTCTC	5 cut(s)	282, 289, 401, 590, 727
BstMBI	GATC	4 cut(s)	252, 414, 768, 928
BstMWI	GCNNNNNNNGC	3 cut(s)	169, 229, 933
BstNI	CCWGG	2 cut(s)	103, 419
BstSCI	CCNGG	4 cut(s)	101, 210, 417, 759
BstSFI	CTRYAG	1 cut(s)	177
BstSLI	GKGCMC	1 cut(s)	616
BstUI	CGCG	2 cut(s)	293, 409
BstV1I	GCAGC	5 cut(s)	121, 124, 380, 649, 826
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	3 cut(s)	422, 614, 936
BtsCI	GGATG	1 cut(s)	559
BtsI	GCAGTG	2 cut(s)	317, 423
BtsIMutI	CAGTG	2 cut(s)	317, 423
Cac8I	GCNNGC	5 cut(s)	108, 174, 409, 844, 919
CciI	TCATGA	1 cut(s)	331
CfoI	GCGC	3 cut(s)	237, 409, 411
Cfr13I	GGNCC	3 cut(s)	612, 613, 934
CseI	GACGC	1 cut(s)	299
Csp6I	GTAC	4 cut(s)	208, 517, 568, 676
CviAII	CATG	2 cut(s)	332, 430
CviQI	GTAC	4 cut(s)	208, 517, 568, 676
DpnI	GATC	4 cut(s)	254, 416, 770, 930
DpnII	GATC	4 cut(s)	252, 414, 768, 928
DraI	TTTAAA	1 cut(s)	852
DrdI	GACNNNNNNGTC	2 cut(s)	393, 761
DseDI	GACNNNNNNGTC	2 cut(s)	393, 761
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	2 cut(s)	335, 433
FaqI	GGGAC	2 cut(s)	227, 906
FatI	CATG	2 cut(s)	331, 429
FauI	CCCGC	1 cut(s)	364
Fnu4HI	GCNGC	6 cut(s)	135, 138, 233, 369, 638, 840
FokI	GGATG	1 cut(s)	566
FriOI	GRGCYC	1 cut(s)	616
Fsp4HI	GCNGC	6 cut(s)	135, 138, 233, 369, 638, 840
FspBI	CTAG	5 cut(s)	122, 717, 740, 819, 918
GlaI	GCGC	3 cut(s)	236, 408, 410
GluI	GCNGC	6 cut(s)	135, 138, 233, 369, 638, 840
HaeII	RGCGCY	1 cut(s)	238
HaeIII	GGCC	3 cut(s)	422, 614, 936
HapII	CCGG	7 cut(s)	169, 194, 200, 211, 282, 641, 760
HgaI	GACGC	1 cut(s)	299
HhaI	GCGC	3 cut(s)	237, 409, 411
Hin1I	GRCGYC	1 cut(s)	756
Hin1II	CATG	2 cut(s)	335, 433
Hin6I	GCGC	3 cut(s)	235, 407, 409
HinP1I	GCGC	3 cut(s)	235, 407, 409
HindIII	AAGCTT	3 cut(s)	221, 485, 855
HinfI	GANTC	4 cut(s)	98, 153, 325, 394
HpaII	CCGG	7 cut(s)	169, 194, 200, 211, 282, 641, 760
HphI	GGTGA	1 cut(s)	334
Hpy166II	GTNNAC	1 cut(s)	58
Hpy188I	TCNGA	5 cut(s)	77, 90, 158, 510, 697
Hpy188III	TCNNGA	6 cut(s)	282, 332, 656, 766, 872, 940
Hpy8I	GTNNAC	1 cut(s)	58
HpyAV	CCTTC	2 cut(s)	45, 662
HpyCH4III	ACNGT	1 cut(s)	516
HpyCH4IV	ACGT	1 cut(s)	756
HpyCH4V	TGCA	4 cut(s)	263, 368, 468, 779
HpyF10VI	GCNNNNNNNGC	3 cut(s)	169, 229, 933
HpySE526I	ACGT	1 cut(s)	756
Hsp92I	GRCGYC	1 cut(s)	756
Hsp92II	CATG	2 cut(s)	335, 433
HspAI	GCGC	3 cut(s)	235, 407, 409
Kpn2I	TCCGGA	1 cut(s)	281
Kzo9I	GATC	4 cut(s)	252, 414, 768, 928
Lsp1109I	GCAGC	5 cut(s)	121, 124, 380, 649, 826
MaeI	CTAG	5 cut(s)	122, 717, 740, 819, 918
MaeII	ACGT	1 cut(s)	756
MaeIII	GTNAC	1 cut(s)	381
MalI	GATC	4 cut(s)	254, 416, 770, 930
MbiI	CCGCTC	1 cut(s)	661
MboI	GATC	4 cut(s)	252, 414, 768, 928
MboII	GAAGA	2 cut(s)	137, 980
MflI	RGATCY	2 cut(s)	252, 414
MhlI	GDGCHC	1 cut(s)	616
MlsI	TGGCCA	1 cut(s)	422
MluCI	AATT	3 cut(s)	91, 493, 623
MluNI	TGGCCA	1 cut(s)	422
MlyI	GAGTC	2 cut(s)	92, 403
MmeI	TCCRAC	4 cut(s)	488, 515, 885, 926
Mox20I	TGGCCA	1 cut(s)	422
MroI	TCCGGA	1 cut(s)	281
MscI	TGGCCA	1 cut(s)	422
MseI	TTAA	3 cut(s)	851, 951, 979
MslI	CAYNNNNRTG	2 cut(s)	428, 473
Msp20I	TGGCCA	1 cut(s)	422
MspA1I	CMGCKG	1 cut(s)	371
MspI	CCGG	7 cut(s)	169, 194, 200, 211, 282, 641, 760
MspR9I	CCNGG	4 cut(s)	103, 212, 419, 761
MvaI	CCWGG	2 cut(s)	103, 419
MvnI	CGCG	2 cut(s)	293, 409
MwoI	GCNNNNNNNGC	3 cut(s)	169, 229, 933
NciI	CCSGG	2 cut(s)	212, 761
NdeII	GATC	4 cut(s)	252, 414, 768, 928
NheI	GCTAGC	1 cut(s)	917
NlaIII	CATG	2 cut(s)	335, 433
NlaIV	GGNNCC	4 cut(s)	198, 280, 441, 614
NspV	TTCGAA	1 cut(s)	621
PagI	TCATGA	1 cut(s)	331
PauI	GCGCGC	1 cut(s)	407
PfeI	GAWTC	2 cut(s)	153, 325
PflMI	CCANNNNNTGG	1 cut(s)	357
PkrI	GCNGC	6 cut(s)	136, 139, 234, 370, 639, 841
PleI	GAGTC	2 cut(s)	92, 402
PpsI	GAGTC	2 cut(s)	92, 402
Psp6I	CCWGG	2 cut(s)	101, 417
PspGI	CCWGG	2 cut(s)	101, 417
PspN4I	GGNNCC	4 cut(s)	198, 280, 441, 614
PspOMI	GGGCCC	1 cut(s)	612
PspPI	GGNCC	3 cut(s)	612, 613, 934
PsuI	RGATCY	2 cut(s)	252, 414
PteI	GCGCGC	1 cut(s)	407
RsaI	GTAC	4 cut(s)	209, 518, 569, 677
RsaNI	GTAC	4 cut(s)	208, 517, 568, 676
RseI	CAYNNNNRTG	2 cut(s)	428, 473
SaqAI	TTAA	3 cut(s)	851, 951, 979
SatI	GCNGC	6 cut(s)	135, 138, 233, 369, 638, 840
Sau3AI	GATC	4 cut(s)	252, 414, 768, 928
Sau96I	GGNCC	3 cut(s)	612, 613, 934
SchI	GAGTC	2 cut(s)	92, 403
ScrFI	CCNGG	4 cut(s)	103, 212, 419, 761
SduI	GDGCHC	1 cut(s)	616
SfcI	CTRYAG	1 cut(s)	177
SfuI	TTCGAA	1 cut(s)	621
SmiMI	CAYNNNNRTG	2 cut(s)	428, 473
SmlI	CTYRAG	3 cut(s)	398, 656, 938
SmoI	CTYRAG	3 cut(s)	398, 656, 938
Sse9I	AATT	3 cut(s)	91, 493, 623
SsiI	CCGC	5 cut(s)	34, 232, 320, 371, 661
SspMI	CTAG	5 cut(s)	122, 717, 740, 819, 918
StyD4I	CCNGG	4 cut(s)	101, 210, 417, 759
StyI	CCWWGG	1 cut(s)	351
TaaI	ACNGT	1 cut(s)	516
TaiI	ACGT	1 cut(s)	759
TaqI	TCGA	2 cut(s)	621, 865
TasI	AATT	3 cut(s)	91, 493, 623
TauI	GCSGC	1 cut(s)	235
TfiI	GAWTC	2 cut(s)	153, 325
Tru1I	TTAA	3 cut(s)	851, 951, 979
Tru9I	TTAA	3 cut(s)	851, 951, 979
TscAI	CASTG	2 cut(s)	317, 430
TseI	GCWGC	5 cut(s)	134, 137, 368, 637, 839
TspDTI	ATGAA	1 cut(s)	497
TspRI	CASTG	2 cut(s)	317, 430
Van91I	CCANNNNNTGG	1 cut(s)	357
XapI	RAATTY	1 cut(s)	493
XspI	CTAG	5 cut(s)	122, 717, 740, 819, 918
ZraI	GACGTC	1 cut(s)	757

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