Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0016249

Physical Location & Seq

Genomic Coordinates Forward (+)

19561208 .. 19562889

Gene Structure 1682 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG226700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1050 bp

ATGAATAGTCCATCCGGACGATCCGGAAATCGAAAAAAATCCCCAGATCGATCGAAGACCGGCCCAATGGTATATGACGAGATTGTGGCTGTTGAGAGGCGGAACAGGGATCGGAGAAGGGTCCACTATGAGCAAGAGGTCAGAAACAATCCTCTGAATTACGACTCCTGGCTCGCTTACATAGGGCTAGAAGAGAGTGCTGCTGCGAACAAGCACCGAATCAGAGAGCTGTTCCGGCGAGCTACAGCTAATGTTCCTCCGGTGCCGGAGTTGTACCGGGACGGGAAGCTTCGGTGGCGGCGCTATGTTGATTTGTGGATCCATTATGCAACTTATGAGGAGGGTTCCGGAGGAGACGCGAGACGAGTTTATGAGCAGTGCCTTGCGGTGATTCCTCATGACAAGTTCTCATTTGCCAAGGTTTGGCTTCTTGCAGCGGGTTTGGAGTTACGACAGGGGGATCTCAAGGGTGCGCGCAAGATCCTGGCCACTGCCATGGGAACGGCACCAAAACCCAAGATATTTACCAAGTGCATTGAGATGGAGATGAAGCTTGGGAATTTGGATCTGTGTCGGAAACTGTACGAGAAGTATGTGTGTTGGAAACCACAGAACTGGCATGGTTGGGTCAAGTACGCAGAGTTTGAGAGAGCATTGGGGGAGACAGAACGAGTGAGGGCCCTTTTCGAATTGGGTATCCAGCAGCCGGAAATCGACCTTCTTGAGCGGTTGTGGTGGGCGTACATTGAGTTTGAAATATCCGAGGGGGAGTTTGAGAGAACTAGAAAACTCTACGAGAGACTACTAGACTGCTCAACAAATCATGTCCGGGTCTGGATCAGTTATGCAAGGTTTGAGGCACAAGAGAGCCATTCTATTGAACATGCTAGAATGGTTTTCAGTAGAGCTGCTCGCTATTTAAAAGCTTGGGGTCGAAGTGAGGAGGAGAGGAATATGTTGCGACAAGCATGGTTGGATATGGAGGCTAGCTTTGGCGATCTGGGCCTCAAGAGTTGGATTAAGATGTTCAAAATAGAAGAAAAAAGTTGA

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

349

Amino Acids

41.32

Weight (kDa)

9.24

Isoelectric Point (pI)

55.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_N	PF23233	41 - 203	4.5e-08	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_PRP39_N	PF23240	176 - 276	8.1e-11	PRP39 N-terminal HAT repeat
HAT_Syf1_CNRKL1_C	PF23231	179 - 263	3.5e-06	Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat
HAT_Syf1_CNRKL1_N	PF23233	239 - 304	9.4e-07	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_PRP39_C	PF23241	244 - 307	1.3e-11	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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Align Labels (Cladogram)

Image

Tree File

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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)
AccB1I	GGYRCC	2 cut(s)	262, 505
AccB7I	CCANNNNNTGG	1 cut(s)	423
AccBSI	CCGCTC	1 cut(s)	727
AccII	CGCG	2 cut(s)	359, 475
AccIII	TCCGGA	3 cut(s)	14, 23, 347
AciI	CCGC	5 cut(s)	100, 298, 386, 437, 727
AclWI	GGATC	8 cut(s)	15, 117, 313, 326, 468, 475, 573, 845
AcoI	YGGCCR	1 cut(s)	486
AcsI	RAATTY	1 cut(s)	559
AfaI	GTAC	4 cut(s)	275, 584, 635, 743
AfiI	CCNNNNNNNGG	2 cut(s)	423, 706
AgsI	TTSAA	3 cut(s)	755, 881, 1030
AjnI	CCWGG	2 cut(s)	167, 483
AluBI	AGCT	8 cut(s)	229, 242, 248, 289, 553, 908, 926, 990
AluI	AGCT	8 cut(s)	229, 242, 248, 289, 553, 908, 926, 990
Alw26I	GTCTC	4 cut(s)	348, 355, 656, 793
AlwI	GGATC	8 cut(s)	15, 117, 313, 326, 468, 475, 573, 845
Aor13HI	TCCGGA	3 cut(s)	14, 23, 347
AoxI	GGCC	4 cut(s)	61, 486, 678, 1003
ApaI	GGGCCC	1 cut(s)	682
ApeKI	GCWGC	5 cut(s)	200, 203, 434, 703, 908
ApoI	RAATTY	1 cut(s)	559
AspLEI	GCGC	3 cut(s)	303, 475, 477
AspS9I	GGNCC	5 cut(s)	62, 121, 678, 679, 1003
AsuC2I	CCSGG	2 cut(s)	278, 830
AsuHPI	GGTGA	1 cut(s)	400
AsuII	TTCGAA	1 cut(s)	687
AsuNHI	GCTAGC	1 cut(s)	986
AvaII	GGWCC	1 cut(s)	121
BaeGI	GKGCMC	1 cut(s)	682
BalI	TGGCCA	1 cut(s)	488
BamHI	GGATCC	1 cut(s)	318
BanI	GGYRCC	2 cut(s)	262, 505
BanII	GRGCYC	1 cut(s)	682
BbsI	GAAGAC	1 cut(s)	62
BbvI	GCAGC	5 cut(s)	187, 190, 446, 715, 895
BccI	CCATC	2 cut(s)	19, 535
BceAI	ACGGC	1 cut(s)	519
BciT130I	CCWGG	2 cut(s)	169, 485
BciVI	GTATCC	1 cut(s)	707
BcnI	CCSGG	2 cut(s)	278, 830
BcoDI	GTCTC	4 cut(s)	348, 355, 656, 793
BfaI	CTAG	5 cut(s)	188, 783, 806, 888, 987
BfmI	CTRYAG	1 cut(s)	243
BfoI	RGCGCY	1 cut(s)	304
BfuI	GTATCC	1 cut(s)	707
BisI	GCNGC	6 cut(s)	201, 204, 299, 435, 704, 909
BlsI	GCNGC	6 cut(s)	202, 205, 300, 436, 705, 910
Bme1390I	CCNGG	4 cut(s)	169, 278, 485, 830
Bme18I	GGWCC	1 cut(s)	121
BmgT120I	GGNCC	5 cut(s)	62, 121, 678, 679, 1003
BmiI	GGNNCC	6 cut(s)	122, 264, 320, 346, 507, 680
BmrFI	CCNGG	4 cut(s)	169, 278, 485, 830
BmtI	GCTAGC	1 cut(s)	990
BpiI	GAAGAC	1 cut(s)	62
Bpu14I	TTCGAA	1 cut(s)	687
BpuEI	CTTGAG	3 cut(s)	449, 743, 992
BpuMI	CCSGG	2 cut(s)	278, 830
Bsa29I	ATCGAT	1 cut(s)	49
BsaJI	CCNNGG	3 cut(s)	417, 495, 762
BsaWI	WCCGGW	4 cut(s)	14, 23, 259, 347
Bsc4I	CCNNNNNNNGG	2 cut(s)	423, 706
Bse118I	RCCGGY	1 cut(s)	59
Bse1I	ACTGG	1 cut(s)	620
BseAI	TCCGGA	3 cut(s)	14, 23, 347
BseBI	CCWGG	2 cut(s)	169, 485
BseCI	ATCGAT	1 cut(s)	49
BseDI	CCNNGG	3 cut(s)	417, 495, 762
BseGI	GGATG	1 cut(s)	11
BseLI	CCNNNNNNNGG	2 cut(s)	423, 706
BseNI	ACTGG	1 cut(s)	620
BsePI	GCGCGC	1 cut(s)	473
BseRI	GAGGAG	4 cut(s)	353, 366, 956, 959
BseSI	GKGCMC	1 cut(s)	682
BseXI	GCAGC	5 cut(s)	187, 190, 446, 715, 895
Bsh1236I	CGCG	2 cut(s)	359, 475
Bsh1285I	CGRYCG	1 cut(s)	53
BshFI	GGCC	4 cut(s)	63, 488, 680, 1005
BshNI	GGYRCC	2 cut(s)	262, 505
BshVI	ATCGAT	1 cut(s)	49
BsiEI	CGRYCG	1 cut(s)	53
BslFI	GGGAC	1 cut(s)	293
BslI	CCNNNNNNNGG	2 cut(s)	423, 706
BsmAI	GTCTC	4 cut(s)	348, 355, 656, 793
BsmBI	CGTCTC	2 cut(s)	348, 355
BsmFI	GGGAC	1 cut(s)	293
BsnI	GGCC	4 cut(s)	63, 488, 680, 1005
Bsp119I	TTCGAA	1 cut(s)	687
Bsp120I	GGGCCC	1 cut(s)	678
Bsp1286I	GDGCHC	1 cut(s)	682
Bsp13I	TCCGGA	3 cut(s)	14, 23, 347
Bsp19I	CCATGG	1 cut(s)	495
BspACI	CCGC	5 cut(s)	100, 298, 386, 437, 727
BspANI	GGCC	4 cut(s)	63, 488, 680, 1005
BspDI	ATCGAT	1 cut(s)	49
BspEI	TCCGGA	3 cut(s)	14, 23, 347
BspFNI	CGCG	2 cut(s)	359, 475
BspHI	TCATGA	1 cut(s)	397
BspLI	GGNNCC	6 cut(s)	122, 264, 320, 346, 507, 680
BspOI	GCTAGC	1 cut(s)	990
BspPI	GGATC	8 cut(s)	15, 117, 313, 326, 468, 475, 573, 845
BspT104I	TTCGAA	1 cut(s)	687
BspT107I	GGYRCC	2 cut(s)	262, 505
BsrBI	CCGCTC	1 cut(s)	727
BsrFI	RCCGGY	1 cut(s)	59
BsrI	ACTGG	1 cut(s)	620
BssAI	RCCGGY	1 cut(s)	59
BssECI	CCNNGG	3 cut(s)	417, 495, 762
BssHII	GCGCGC	1 cut(s)	473
BssT1I	CCWWGG	2 cut(s)	417, 495
Bst2UI	CCWGG	2 cut(s)	169, 485
Bst4CI	ACNGT	1 cut(s)	582
Bst6I	CTCTTC	1 cut(s)	186
BstBI	TTCGAA	1 cut(s)	687
BstC8I	GCNNGC	5 cut(s)	174, 240, 475, 913, 988
BstDSI	CCRYGG	1 cut(s)	495
BstF5I	GGATG	1 cut(s)	11
BstFNI	CGCG	2 cut(s)	359, 475
BstH2I	RGCGCY	1 cut(s)	304
BstHHI	GCGC	3 cut(s)	303, 475, 477
BstMAI	GTCTC	4 cut(s)	348, 355, 656, 793
BstMCI	CGRYCG	1 cut(s)	53
BstMWI	GCNNNNNNNGC	3 cut(s)	235, 295, 1002
BstNI	CCWGG	2 cut(s)	169, 485
BstNSI	RCATGY	1 cut(s)	887
BstSCI	CCNGG	4 cut(s)	167, 276, 483, 828
BstSFI	CTRYAG	1 cut(s)	243
BstSLI	GKGCMC	1 cut(s)	682
BstUI	CGCG	2 cut(s)	359, 475
BstV1I	GCAGC	5 cut(s)	187, 190, 446, 715, 895
BstV2I	GAAGAC	1 cut(s)	62
BstX2I	RGATCY	4 cut(s)	318, 460, 480, 565
BstXI	CCANNNNNNTGG	2 cut(s)	496, 615
BstYI	RGATCY	4 cut(s)	318, 460, 480, 565
Bsu15I	ATCGAT	1 cut(s)	49
BsuI	GTATCC	1 cut(s)	707
BsuRI	GGCC	4 cut(s)	63, 488, 680, 1005
BsuTUI	ATCGAT	1 cut(s)	49
BtgI	CCRYGG	1 cut(s)	495
BtsCI	GGATG	1 cut(s)	11
BtsI	GCAGTG	2 cut(s)	383, 489
BtsIMutI	CAGTG	2 cut(s)	383, 489
Cac8I	GCNNGC	5 cut(s)	174, 240, 475, 913, 988
CciI	TCATGA	1 cut(s)	397
CfoI	GCGC	3 cut(s)	303, 475, 477
Cfr10I	RCCGGY	1 cut(s)	59
Cfr13I	GGNCC	5 cut(s)	62, 121, 678, 679, 1003
ClaI	ATCGAT	1 cut(s)	49
CseI	GACGC	1 cut(s)	365
Csp6I	GTAC	4 cut(s)	274, 583, 634, 742
CviAII	CATG	6 cut(s)	398, 496, 620, 824, 884, 969
CviQI	GTAC	4 cut(s)	274, 583, 634, 742
DraI	TTTAAA	1 cut(s)	921
EaeI	YGGCCR	1 cut(s)	486
Eam1104I	CTCTTC	1 cut(s)	186
EarI	CTCTTC	1 cut(s)	186
EciI	GGCGGA	1 cut(s)	115
Eco130I	CCWWGG	2 cut(s)	417, 495
Eco24I	GRGCYC	1 cut(s)	682
Eco47I	GGWCC	1 cut(s)	121
EcoO109I	RGGNCCY	2 cut(s)	678, 679
EcoRII	CCWGG	2 cut(s)	167, 483
EcoT14I	CCWWGG	2 cut(s)	417, 495
EcoT38I	GRGCYC	1 cut(s)	682
ErhI	CCWWGG	2 cut(s)	417, 495
Esp3I	CGTCTC	2 cut(s)	348, 355
FaeI	CATG	6 cut(s)	401, 499, 623, 827, 887, 972
FaqI	GGGAC	1 cut(s)	293
FatI	CATG	6 cut(s)	397, 495, 619, 823, 883, 968
FauI	CCCGC	1 cut(s)	430
Fnu4HI	GCNGC	6 cut(s)	201, 204, 299, 435, 704, 909
FriOI	GRGCYC	1 cut(s)	682
Fsp4HI	GCNGC	6 cut(s)	201, 204, 299, 435, 704, 909
FspBI	CTAG	5 cut(s)	188, 783, 806, 888, 987
GlaI	GCGC	3 cut(s)	302, 474, 476
GluI	GCNGC	6 cut(s)	201, 204, 299, 435, 704, 909
HaeII	RGCGCY	1 cut(s)	304
HaeIII	GGCC	4 cut(s)	63, 488, 680, 1005
HgaI	GACGC	1 cut(s)	365
HhaI	GCGC	3 cut(s)	303, 475, 477
Hin1II	CATG	6 cut(s)	401, 499, 623, 827, 887, 972
Hin6I	GCGC	3 cut(s)	301, 473, 475
HinP1I	GCGC	3 cut(s)	301, 473, 475
HindIII	AAGCTT	3 cut(s)	287, 551, 924
HinfI	GANTC	3 cut(s)	164, 219, 391
HphI	GGTGA	1 cut(s)	400
Hpy166II	GTNNAC	1 cut(s)	124
Hpy188I	TCNGA	6 cut(s)	114, 143, 156, 224, 576, 763
Hpy188III	TCNNGA	7 cut(s)	15, 24, 348, 398, 722, 835, 1009
Hpy8I	GTNNAC	1 cut(s)	124
HpyAV	CCTTC	2 cut(s)	111, 728
HpyCH4III	ACNGT	1 cut(s)	582
HpyCH4V	TGCA	4 cut(s)	329, 434, 534, 848
HpyF10VI	GCNNNNNNNGC	3 cut(s)	235, 295, 1002
Hsp92II	CATG	6 cut(s)	401, 499, 623, 827, 887, 972
HspAI	GCGC	3 cut(s)	301, 473, 475
Kpn2I	TCCGGA	3 cut(s)	14, 23, 347
Lsp1109I	GCAGC	5 cut(s)	187, 190, 446, 715, 895
MaeI	CTAG	5 cut(s)	188, 783, 806, 888, 987
MaeIII	GTNAC	1 cut(s)	447
MbiI	CCGCTC	1 cut(s)	727
MboII	GAAGA	3 cut(s)	67, 203, 1049
MflI	RGATCY	4 cut(s)	318, 460, 480, 565
MhlI	GDGCHC	1 cut(s)	682
MlsI	TGGCCA	1 cut(s)	488
MluCI	AATT	3 cut(s)	157, 559, 689
MluNI	TGGCCA	1 cut(s)	488
MlyI	GAGTC	1 cut(s)	158
MmeI	TCCRAC	4 cut(s)	554, 581, 954, 995
Mox20I	TGGCCA	1 cut(s)	488
MroI	TCCGGA	3 cut(s)	14, 23, 347
MscI	TGGCCA	1 cut(s)	488
MseI	TTAA	2 cut(s)	920, 1020
MslI	CAYNNNNRTG	2 cut(s)	494, 539
Msp20I	TGGCCA	1 cut(s)	488
MspA1I	CMGCKG	1 cut(s)	437
MspR9I	CCNGG	4 cut(s)	169, 278, 485, 830
MvaI	CCWGG	2 cut(s)	169, 485
MvnI	CGCG	2 cut(s)	359, 475
MwoI	GCNNNNNNNGC	3 cut(s)	235, 295, 1002
NciI	CCSGG	2 cut(s)	278, 830
NcoI	CCATGG	1 cut(s)	495
NheI	GCTAGC	1 cut(s)	986
NlaIII	CATG	6 cut(s)	401, 499, 623, 827, 887, 972
NlaIV	GGNNCC	6 cut(s)	122, 264, 320, 346, 507, 680
NspI	RCATGY	1 cut(s)	887
NspV	TTCGAA	1 cut(s)	687
PagI	TCATGA	1 cut(s)	397
PauI	GCGCGC	1 cut(s)	473
PfeI	GAWTC	2 cut(s)	219, 391
PflMI	CCANNNNNTGG	1 cut(s)	423
PkrI	GCNGC	6 cut(s)	202, 205, 300, 436, 705, 910
Ple19I	CGATCG	1 cut(s)	53
PleI	GAGTC	1 cut(s)	158
PpsI	GAGTC	1 cut(s)	158
Psp6I	CCWGG	2 cut(s)	167, 483
PspGI	CCWGG	2 cut(s)	167, 483
PspN4I	GGNNCC	6 cut(s)	122, 264, 320, 346, 507, 680
PspOMI	GGGCCC	1 cut(s)	678
PspPI	GGNCC	5 cut(s)	62, 121, 678, 679, 1003
PsuI	RGATCY	4 cut(s)	318, 460, 480, 565
PteI	GCGCGC	1 cut(s)	473
PvuI	CGATCG	1 cut(s)	53
RsaI	GTAC	4 cut(s)	275, 584, 635, 743
RsaNI	GTAC	4 cut(s)	274, 583, 634, 742
RseI	CAYNNNNRTG	2 cut(s)	494, 539
SaqAI	TTAA	2 cut(s)	920, 1020
SatI	GCNGC	6 cut(s)	201, 204, 299, 435, 704, 909
Sau96I	GGNCC	5 cut(s)	62, 121, 678, 679, 1003
SchI	GAGTC	1 cut(s)	158
ScrFI	CCNGG	4 cut(s)	169, 278, 485, 830
SduI	GDGCHC	1 cut(s)	682
SfcI	CTRYAG	1 cut(s)	243
SfuI	TTCGAA	1 cut(s)	687
SinI	GGWCC	1 cut(s)	121
SmiMI	CAYNNNNRTG	2 cut(s)	494, 539
SmlI	CTYRAG	3 cut(s)	464, 722, 1007
SmoI	CTYRAG	3 cut(s)	464, 722, 1007
Sse9I	AATT	3 cut(s)	157, 559, 689
SsiI	CCGC	5 cut(s)	100, 298, 386, 437, 727
SspMI	CTAG	5 cut(s)	188, 783, 806, 888, 987
StyD4I	CCNGG	4 cut(s)	167, 276, 483, 828
StyI	CCWWGG	2 cut(s)	417, 495
TaaI	ACNGT	1 cut(s)	582
TaqI	TCGA	6 cut(s)	31, 49, 53, 687, 714, 934
TasI	AATT	3 cut(s)	157, 559, 689
TauI	GCSGC	1 cut(s)	301
TfiI	GAWTC	2 cut(s)	219, 391
Tru1I	TTAA	2 cut(s)	920, 1020
Tru9I	TTAA	2 cut(s)	920, 1020
TscAI	CASTG	2 cut(s)	383, 496
TseI	GCWGC	5 cut(s)	200, 203, 434, 703, 908
TspDTI	ATGAA	2 cut(s)	17, 563
TspRI	CASTG	2 cut(s)	383, 496
Van91I	CCANNNNNTGG	1 cut(s)	423
VpaK11BI	GGWCC	1 cut(s)	121
XapI	RAATTY	1 cut(s)	559
XceI	RCATGY	1 cut(s)	887
XspI	CTAG	5 cut(s)	188, 783, 806, 888, 987

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