Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0019347

Physical Location & Seq

Genomic Coordinates Forward (+)

41357590 .. 41358595

Gene Structure 1006 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG277300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGGAGGCTACCATTCAGAAAATTAAAAACGACAAAGAACAAGCCTATGCTCTTAAGGAGAGTCTTGATTCCGATGAGGCCATTATTGGAAGGCTCAACAAGTTTGCTGCTTCTCCCTCCCAACTACCAAGCCAGATCTCGTGTGATGGCAGCTCCTTTGGTACAGTATATGGGAGGCTTGATTTCGTATATGATGGGATGAAGAAGAATTGTCGGACATCTAGGGTTACCATCCCCCACGACCTTAATATGGTTAGTGAAATAAATAGTGATGCATTGTTCATCTTGTTGATTGACCAATCCTCTAATGCTTATATACTGGAAAGAGAGGCTCGGTTTGCAGAGCGCTTTCCATGCATCATTGTGTTTATCAATCAAGTACATGGACAGCCTGCTAACACTACGGGGCTTTTCTTGATGGAGATGAAGATGAAGTTTCCTAACATGCCGATGCTGGCTCTTGTTAATGCTAGTCCAGAAGGAGTGAAGATGTTACTTTCACTCGAGGGACTTGATGTCAAGTGGTTAGGAATCAGAAGGGACGATTTTGCCAAATATAAAATACCTACCAATGTCGACACGCCACTGACTGAAGTTGACATCAAGTTGGCGAGACATCTCTTGGAGGAAGAACGTGTCCAAAAGAATCCGGTATTGCGTGATGAGCTGAATCACATGGTAGCCACGGAGAGTATGGTAGAATCTGATGCTGTGCTAGCTTTGGGGGCACCCTTCTTGTATCAGGTTTATTTACCACTCAAACTCCAGTATATGGATTGGCAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000729 GO:0001708 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003916 GO:0003918 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007127 GO:0007131 GO:0008094 GO:0008150 GO:0008152 GO:0008544 GO:0009888 GO:0009913 GO:0009957 GO:0009987 GO:0016043 GO:0016462 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016853 GO:0016887 GO:0016889 GO:0016894 GO:0017111 GO:0022402 GO:0022414 GO:0030154 GO:0030855 GO:0031974 GO:0031981 GO:0032502 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045165 GO:0046483 GO:0048285 GO:0048856 GO:0048869 GO:0050896 GO:0051321 GO:0051716 GO:0060429 GO:0061505 GO:0061982 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

261

Amino Acids

29.58

Weight (kDa)

5.23

Isoelectric Point (pI)

42.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	94 - 255	5.9e-17	Topoisomerase 6 subunit A/Spo11, Toprim domain

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: OG0019347)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0363151
rosa_laevigata	RLG00000027588
rosa_multiflora	Rmu_sc0002925.1_g000001
rosa_roxburghii	Rroxscaffold_4G00293410
rosa_rugosa	Rorug01G0305100.1
rosa_samantha	Rh1AG313800 Rh1BG277300 Rh1DG308000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	727
AccB7I	CCANNNNNTGG	1 cut(s)	772
AccI	GTMKAC	1 cut(s)	576
AcuI	CTGAAG	1 cut(s)	612
AfaI	GTAC	2 cut(s)	163, 381
AfeI	AGCGCT	1 cut(s)	347
AfiI	CCNNNNNNNGG	2 cut(s)	250, 772
AflII	CTTAAG	1 cut(s)	53
AflIII	ACRYGT	1 cut(s)	634
AhdI	GACNNNNNGTC	1 cut(s)	515
AluBI	AGCT	3 cut(s)	153, 667, 719
AluI	AGCT	3 cut(s)	153, 667, 719
Alw26I	GTCTC	1 cut(s)	607
Ama87I	CYCGRG	1 cut(s)	503
Aor51HI	AGCGCT	1 cut(s)	347
AoxI	GGCC	1 cut(s)	78
ApeKI	GCWGC	2 cut(s)	107, 150
AspLEI	GCGC	1 cut(s)	348
AsuNHI	GCTAGC	1 cut(s)	715
AvaI	CYCGRG	1 cut(s)	503
BaeGI	GKGCMC	1 cut(s)	730
BanI	GGYRCC	1 cut(s)	727
BauI	CACGAG	1 cut(s)	139
BbvI	GCAGC	2 cut(s)	94, 162
BccI	CCATC	4 cut(s)	140, 188, 239, 412
BcoDI	GTCTC	1 cut(s)	607
BfaI	CTAG	3 cut(s)	222, 471, 716
BfoI	RGCGCY	1 cut(s)	349
BfrI	CTTAAG	1 cut(s)	53
BglII	AGATCT	1 cut(s)	135
BisI	GCNGC	2 cut(s)	108, 151
BlsI	GCNGC	2 cut(s)	109, 152
BmeRI	GACNNNNNGTC	1 cut(s)	515
BmeT110I	CYCGRG	1 cut(s)	503
BmiI	GGNNCC	1 cut(s)	729
BmsI	GCATC	4 cut(s)	262, 366, 441, 697
BmtI	GCTAGC	1 cut(s)	719
BpmI	CTGGAG	1 cut(s)	749
BsaJI	CCNNGG	1 cut(s)	684
BsaWI	WCCGGW	1 cut(s)	649
BsaXI	ACNNNNNCTCC	2 cut(s)	747, 777
Bsc4I	CCNNNNNNNGG	2 cut(s)	250, 772
Bse1I	ACTGG	2 cut(s)	324, 766
BseDI	CCNNGG	1 cut(s)	684
BseGI	GGATG	2 cut(s)	204, 231
BseLI	CCNNNNNNNGG	2 cut(s)	250, 772
BseNI	ACTGG	2 cut(s)	324, 766
BseSI	GKGCMC	1 cut(s)	730
BseXI	GCAGC	2 cut(s)	94, 162
BshFI	GGCC	1 cut(s)	80
BshNI	GGYRCC	1 cut(s)	727
BsiHKCI	CYCGRG	1 cut(s)	503
BsiSI	CCGG	1 cut(s)	650
BslFI	GGGAC	2 cut(s)	522, 554
BslI	CCNNNNNNNGG	2 cut(s)	250, 772
BsmAI	GTCTC	1 cut(s)	607
BsmFI	GGGAC	2 cut(s)	522, 554
BsnI	GGCC	1 cut(s)	80
BsoBI	CYCGRG	1 cut(s)	503
Bsp1286I	GDGCHC	1 cut(s)	730
Bsp143I	GATC	1 cut(s)	135
BspANI	GGCC	1 cut(s)	80
BspLI	GGNNCC	1 cut(s)	729
BspOI	GCTAGC	1 cut(s)	719
BspT107I	GGYRCC	1 cut(s)	727
BspTI	CTTAAG	1 cut(s)	53
BsrI	ACTGG	2 cut(s)	324, 766
BssECI	CCNNGG	1 cut(s)	684
BssMI	GATC	1 cut(s)	135
BssSI	CACGAG	1 cut(s)	139
Bst2BI	CACGAG	1 cut(s)	139
Bst4CI	ACNGT	1 cut(s)	166
BstAFI	CTTAAG	1 cut(s)	53
BstC8I	GCNNGC	3 cut(s)	393, 456, 717
BstDSI	CCRYGG	1 cut(s)	684
BstEII	GGTNACC	1 cut(s)	226
BstF5I	GGATG	2 cut(s)	204, 231
BstH2I	RGCGCY	1 cut(s)	349
BstHHI	GCGC	1 cut(s)	348
BstKTI	GATC	1 cut(s)	138
BstMAI	GTCTC	1 cut(s)	607
BstMBI	GATC	1 cut(s)	135
BstMWI	GCNNNNNNNGC	5 cut(s)	338, 354, 664, 716, 725
BstNSI	RCATGY	1 cut(s)	448
BstPI	GGTNACC	1 cut(s)	226
BstSLI	GKGCMC	1 cut(s)	730
BstV1I	GCAGC	2 cut(s)	94, 162
BstX2I	RGATCY	1 cut(s)	135
BstYI	RGATCY	1 cut(s)	135
BsuRI	GGCC	1 cut(s)	80
BtgI	CCRYGG	1 cut(s)	684
BtsCI	GGATG	2 cut(s)	204, 231
BtsIMutI	CAGTG	1 cut(s)	584
Cac8I	GCNNGC	3 cut(s)	393, 456, 717
CfoI	GCGC	1 cut(s)	348
Csp6I	GTAC	2 cut(s)	162, 380
CviAII	CATG	4 cut(s)	354, 383, 445, 676
CviQI	GTAC	2 cut(s)	162, 380
DpnI	GATC	1 cut(s)	137
DpnII	GATC	1 cut(s)	135
DriI	GACNNNNNGTC	1 cut(s)	515
Eam1105I	GACNNNNNGTC	1 cut(s)	515
Eco47III	AGCGCT	1 cut(s)	347
Eco57I	CTGAAG	1 cut(s)	612
Eco88I	CYCGRG	1 cut(s)	503
Eco91I	GGTNACC	1 cut(s)	226
EcoO65I	GGTNACC	1 cut(s)	226
EcoT22I	ATGCAT	2 cut(s)	277, 359
FaeI	CATG	4 cut(s)	357, 386, 448, 679
FaqI	GGGAC	2 cut(s)	522, 554
FatI	CATG	4 cut(s)	353, 382, 444, 675
FblI	GTMKAC	1 cut(s)	576
Fnu4HI	GCNGC	2 cut(s)	108, 151
FokI	GGATG	2 cut(s)	211, 218
Fsp4HI	GCNGC	2 cut(s)	108, 151
FspBI	CTAG	3 cut(s)	222, 471, 716
GlaI	GCGC	1 cut(s)	347
GluI	GCNGC	2 cut(s)	108, 151
GsuI	CTGGAG	1 cut(s)	749
HaeII	RGCGCY	1 cut(s)	349
HaeIII	GGCC	1 cut(s)	80
HapII	CCGG	1 cut(s)	650
HhaI	GCGC	1 cut(s)	348
Hin1II	CATG	4 cut(s)	357, 386, 448, 679
Hin6I	GCGC	1 cut(s)	346
HinP1I	GCGC	1 cut(s)	346
HincII	GTYRAC	2 cut(s)	577, 598
HindII	GTYRAC	2 cut(s)	577, 598
HinfI	GANTC	6 cut(s)	61, 68, 531, 646, 670, 701
HpaII	CCGG	1 cut(s)	650
Hpy166II	GTNNAC	2 cut(s)	577, 598
Hpy188I	TCNGA	5 cut(s)	18, 73, 216, 536, 706
Hpy188III	TCNNGA	3 cut(s)	65, 415, 476
Hpy8I	GTNNAC	2 cut(s)	577, 598
HpyAV	CCTTC	4 cut(s)	84, 473, 531, 742
HpyCH4III	ACNGT	1 cut(s)	166
HpyCH4IV	ACGT	1 cut(s)	634
HpyCH4V	TGCA	3 cut(s)	275, 341, 357
HpyF10VI	GCNNNNNNNGC	5 cut(s)	338, 354, 664, 716, 725
HpySE526I	ACGT	1 cut(s)	634
Hsp92II	CATG	4 cut(s)	357, 386, 448, 679
HspAI	GCGC	1 cut(s)	346
Kzo9I	GATC	1 cut(s)	135
LmnI	GCTCC	1 cut(s)	158
LpnPI	CCDG	8 cut(s)	146, 305, 405, 440, 489, 663, 728, 779
Lsp1109I	GCAGC	2 cut(s)	94, 162
LweI	GCATC	4 cut(s)	262, 366, 441, 697
MaeI	CTAG	3 cut(s)	222, 471, 716
MaeII	ACGT	1 cut(s)	634
MaeIII	GTNAC	2 cut(s)	226, 492
MalI	GATC	1 cut(s)	137
MboI	GATC	1 cut(s)	135
MboII	GAAGA	5 cut(s)	214, 217, 439, 499, 641
MflI	RGATCY	1 cut(s)	135
MhlI	GDGCHC	1 cut(s)	730
MluCI	AATT	2 cut(s)	21, 208
MlyI	GAGTC	1 cut(s)	70
MmeI	TCCRAC	1 cut(s)	194
MnlI	CCTC	7 cut(s)	70, 127, 168, 313, 322, 499, 619
Mph1103I	ATGCAT	2 cut(s)	277, 359
MseI	TTAA	4 cut(s)	24, 54, 246, 465
MslI	CAYNNNNRTG	2 cut(s)	362, 449
MspCI	CTTAAG	1 cut(s)	53
MspI	CCGG	1 cut(s)	650
MwoI	GCNNNNNNNGC	5 cut(s)	338, 354, 664, 716, 725
NdeII	GATC	1 cut(s)	135
NheI	GCTAGC	1 cut(s)	715
NlaIII	CATG	4 cut(s)	357, 386, 448, 679
NlaIV	GGNNCC	1 cut(s)	729
NsiI	ATGCAT	2 cut(s)	277, 359
NspI	RCATGY	1 cut(s)	448
PaeR7I	CTCGAG	1 cut(s)	503
PfeI	GAWTC	5 cut(s)	68, 531, 646, 670, 701
PflMI	CCANNNNNTGG	1 cut(s)	772
PkrI	GCNGC	2 cut(s)	109, 152
PleI	GAGTC	1 cut(s)	69
PpsI	GAGTC	1 cut(s)	69
PspEI	GGTNACC	1 cut(s)	226
PspN4I	GGNNCC	1 cut(s)	729
PspXI	VCTCGAGB	1 cut(s)	503
PsuI	RGATCY	1 cut(s)	135
RsaI	GTAC	2 cut(s)	163, 381
RsaNI	GTAC	2 cut(s)	162, 380
RseI	CAYNNNNRTG	2 cut(s)	362, 449
SalI	GTCGAC	1 cut(s)	575
SaqAI	TTAA	4 cut(s)	24, 54, 246, 465
SatI	GCNGC	2 cut(s)	108, 151
Sau3AI	GATC	1 cut(s)	135
SchI	GAGTC	1 cut(s)	70
SduI	GDGCHC	1 cut(s)	730
SetI	ASST	7 cut(s)	155, 246, 568, 637, 669, 721, 747
SfaNI	GCATC	4 cut(s)	262, 366, 441, 697
Sfr274I	CTCGAG	1 cut(s)	503
SlaI	CTCGAG	1 cut(s)	503
SmiMI	CAYNNNNRTG	2 cut(s)	362, 449
SmlI	CTYRAG	2 cut(s)	53, 503
SmoI	CTYRAG	2 cut(s)	53, 503
Sse9I	AATT	2 cut(s)	21, 208
SspMI	CTAG	3 cut(s)	222, 471, 716
TaaI	ACNGT	1 cut(s)	166
TaiI	ACGT	1 cut(s)	637
TaqI	TCGA	2 cut(s)	504, 576
TasI	AATT	2 cut(s)	21, 208
TatI	WGTACW	1 cut(s)	379
TfiI	GAWTC	5 cut(s)	68, 531, 646, 670, 701
Tru1I	TTAA	4 cut(s)	24, 54, 246, 465
Tru9I	TTAA	4 cut(s)	24, 54, 246, 465
TscAI	CASTG	1 cut(s)	591
TseI	GCWGC	2 cut(s)	107, 150
TspDTI	ATGAA	4 cut(s)	215, 271, 440, 446
TspGWI	ACGGA	1 cut(s)	701
TspRI	CASTG	1 cut(s)	591
Van91I	CCANNNNNTGG	1 cut(s)	772
Vha464I	CTTAAG	1 cut(s)	53
XceI	RCATGY	1 cut(s)	448
XcmI	CCANNNNNNNNNTGG	1 cut(s)	691
XhoI	CTCGAG	1 cut(s)	503
XmiI	GTMKAC	1 cut(s)	576
XspI	CTAG	3 cut(s)	222, 471, 716
Zsp2I	ATGCAT	2 cut(s)	277, 359

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