Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0004536

Physical Location & Seq

Genomic Coordinates Reverse (-)

1265932 .. 1266492

Gene Structure 561 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG016100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 561 bp

ATGGTTGATCTTATTCTCGGGTTCTTCCAAGCAAACAAGCGAGAAACACATCTTGGGGTGTTTTACGTAGGGAATAATACCGCCAGTTCATTGTTCACACAAGACGAGGAGTACGCAATTCTTAATGACATCTGTTGCACTATAGGCTGCAGCAGTTCAAGTCTCTACATAGATGATGCTAGTGTAAGAGGCGTTGTTGGAGGTCTGCTTTCGTGGGTGCAGAATGGGTACGAAACCGATTGTCGAAGCCGGGATGATGGGGTGGCCATCCCGTCCATGCATTCAGATATTAGTTTGAAAAATTGTGGAGCCAAGTTGGTATTGGTGGTGGAAAACAAAGCCAGTTTTTATAATCTCATGCAAGACAGGTTTTACCGTGATTATCCATGCATAATCATCACCGGAATGGGAAAGCCCGGGGTGGCGACCAGAAGATTTTTAAAGCTATTGTCGGACAATTTTAGGCTTCCAGTGTATGGCCTTTTCACTGTGATCCAGCAAGCATCAAAATGTTTTCGATTTATACTGTTGGGTCATATGAGGAGGCCTTCGATAGTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000729 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:0008134 GO:0008150 GO:0008152 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:0030957 GO:0031974 GO:0031981 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0042802 GO:0042803 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:0046483 GO:0046983 GO:0048285 GO:0050896 GO:0051321 GO:0051716 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

186

Amino Acids

20.8

Weight (kDa)

8.15

Isoelectric Point (pI)

39.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	107 - 162	3.3e-16	Topoisomerase 6 subunit A/Spo11, Toprim domain

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

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Publication-ready

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Orthologous Genes (Group: OG0004536)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g43731 FvH4_3g43753
rosa_chinensis	RchiOBHm_Chr2g0086091 RchiOBHm_Chr2g0089291 RchiOBHm_Chr2g0089851 RchiOBHm_Chr5g0083311
rosa_laevigata	RLG00000015741 RLG00000016061 RLG00000017209
rosa_multiflora	Rmu_co8293021.1_g000001 Rmu_co8360049.1_g000001 Rmu_sc0000388.1_g000047 Rmu_sc0002384.1_g000009 Rmu_sc0003382.1_g000021 Rmu_sc0017765.1_g000002 Rmu_ssc0000355.1_g000016
rosa_roxburghii	Rroxscaffold_2G00140180 Rroxscaffold_2G00151540
rosa_rugosa	Rorug01G0465600 Rorug01G0488800 Rorug02G0003700
rosa_samantha	Rh2AG015000 Rh2AG045100 Rh2AG048900 Rh2BG047800 Rh2CG016000 Rh2CG016100 Rh2CG045000 Rh2CG049900 Rh5BG561000 Rh5CG583600
rosa_wichuraiana	Rw2G001320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	351
AccB7I	CCANNNNNTGG	1 cut(s)	476
AciI	CCGC	1 cut(s)	81
AclWI	GGATC	1 cut(s)	487
AcoI	YGGCCR	1 cut(s)	264
AfaI	GTAC	2 cut(s)	113, 230
AfiI	CCNNNNNNNGG	1 cut(s)	476
AgsI	TTSAA	2 cut(s)	159, 298
AjuI	GAANNNNNNNTTGG	2 cut(s)	36, 68
AluBI	AGCT	1 cut(s)	445
AluI	AGCT	1 cut(s)	445
Alw26I	GTCTC	1 cut(s)	167
AlwI	GGATC	1 cut(s)	487
Ama87I	CYCGRG	2 cut(s)	17, 416
AoxI	GGCC	3 cut(s)	264, 478, 545
ApeKI	GCWGC	2 cut(s)	147, 150
AsuC2I	CCSGG	3 cut(s)	251, 417, 418
AsuHPI	GGTGA	1 cut(s)	391
AvaI	CYCGRG	2 cut(s)	17, 416
BalI	TGGCCA	1 cut(s)	266
BbvI	GCAGC	2 cut(s)	134, 162
BccI	CCATC	2 cut(s)	251, 275
BcnI	CCSGG	3 cut(s)	251, 417, 418
BcoDI	GTCTC	1 cut(s)	167
BfaI	CTAG	1 cut(s)	180
BfmI	CTRYAG	2 cut(s)	141, 148
BisI	GCNGC	2 cut(s)	148, 151
BlsI	GCNGC	2 cut(s)	149, 152
Bme1390I	CCNGG	3 cut(s)	251, 417, 418
BmeT110I	CYCGRG	2 cut(s)	17, 416
BmiI	GGNNCC	1 cut(s)	310
BmrFI	CCNGG	3 cut(s)	251, 417, 418
BmsI	GCATC	2 cut(s)	166, 512
BpuMI	CCSGG	3 cut(s)	251, 417, 418
BsaAI	YACGTR	1 cut(s)	67
BsaJI	CCNNGG	2 cut(s)	416, 417
BsaWI	WCCGGW	1 cut(s)	401
Bsc4I	CCNNNNNNNGG	1 cut(s)	476
Bse1I	ACTGG	3 cut(s)	84, 342, 470
BseDI	CCNNGG	2 cut(s)	416, 417
BseGI	GGATG	2 cut(s)	259, 267
BseLI	CCNNNNNNNGG	1 cut(s)	476
BseNI	ACTGG	3 cut(s)	84, 342, 470
BseRI	GAGGAG	2 cut(s)	122, 556
BseXI	GCAGC	2 cut(s)	134, 162
BsgI	GTGCAG	1 cut(s)	239
BshFI	GGCC	3 cut(s)	266, 480, 547
BsiHKCI	CYCGRG	2 cut(s)	17, 416
BsiSI	CCGG	3 cut(s)	250, 402, 417
BslI	CCNNNNNNNGG	1 cut(s)	476
BsmAI	GTCTC	1 cut(s)	167
BsmI	GAATGC	1 cut(s)	280
BsnI	GGCC	3 cut(s)	266, 480, 547
BsoBI	CYCGRG	2 cut(s)	17, 416
Bsp143I	GATC	2 cut(s)	7, 492
BspACI	CCGC	1 cut(s)	81
BspANI	GGCC	3 cut(s)	266, 480, 547
BspLI	GGNNCC	1 cut(s)	310
BspMAI	CTGCAG	1 cut(s)	152
BspPI	GGATC	1 cut(s)	487
BsrI	ACTGG	3 cut(s)	84, 342, 470
BssECI	CCNNGG	2 cut(s)	416, 417
BssMI	GATC	2 cut(s)	7, 492
Bst4CI	ACNGT	3 cut(s)	377, 490, 528
BstBAI	YACGTR	1 cut(s)	67
BstC8I	GCNNGC	1 cut(s)	501
BstF5I	GGATG	2 cut(s)	259, 267
BstKTI	GATC	2 cut(s)	10, 495
BstMAI	GTCTC	1 cut(s)	167
BstMBI	GATC	2 cut(s)	7, 492
BstMWI	GCNNNNNNNGC	1 cut(s)	144
BstSCI	CCNGG	3 cut(s)	249, 415, 416
BstSFI	CTRYAG	2 cut(s)	141, 148
BstSNI	TACGTA	1 cut(s)	67
BstV1I	GCAGC	2 cut(s)	134, 162
BsuRI	GGCC	3 cut(s)	266, 480, 547
BtsCI	GGATG	2 cut(s)	259, 267
BtsIMutI	CAGTG	2 cut(s)	477, 486
Cac8I	GCNNGC	1 cut(s)	501
Cfr9I	CCCGGG	1 cut(s)	416
Csp6I	GTAC	2 cut(s)	112, 229
CviAII	CATG	3 cut(s)	277, 358, 387
CviQI	GTAC	2 cut(s)	112, 229
DpnI	GATC	2 cut(s)	9, 494
DpnII	GATC	2 cut(s)	7, 492
DraI	TTTAAA	1 cut(s)	441
EaeI	YGGCCR	1 cut(s)	264
Eco105I	TACGTA	1 cut(s)	67
Eco147I	AGGCCT	1 cut(s)	547
Eco88I	CYCGRG	2 cut(s)	17, 416
EcoT22I	ATGCAT	2 cut(s)	282, 392
FaeI	CATG	3 cut(s)	280, 361, 390
FatI	CATG	3 cut(s)	276, 357, 386
FauNDI	CATATG	1 cut(s)	537
Fnu4HI	GCNGC	2 cut(s)	148, 151
FokI	GGATG	2 cut(s)	254, 266
Fsp4HI	GCNGC	2 cut(s)	148, 151
FspBI	CTAG	1 cut(s)	180
GluI	GCNGC	2 cut(s)	148, 151
HaeIII	GGCC	3 cut(s)	266, 480, 547
HapII	CCGG	3 cut(s)	250, 402, 417
Hin1II	CATG	3 cut(s)	280, 361, 390
HpaII	CCGG	3 cut(s)	250, 402, 417
HphI	GGTGA	1 cut(s)	391
Hpy166II	GTNNAC	1 cut(s)	96
Hpy188I	TCNGA	2 cut(s)	286, 454
Hpy8I	GTNNAC	1 cut(s)	96
HpyAV	CCTTC	1 cut(s)	558
HpyCH4III	ACNGT	3 cut(s)	377, 490, 528
HpyCH4IV	ACGT	1 cut(s)	66
HpyCH4V	TGCA	6 cut(s)	138, 150, 220, 280, 361, 390
HpyF10VI	GCNNNNNNNGC	1 cut(s)	144
HpySE526I	ACGT	1 cut(s)	66
Hsp92II	CATG	3 cut(s)	280, 361, 390
Kzo9I	GATC	2 cut(s)	7, 492
LmnI	GCTCC	1 cut(s)	308
LpnPI	CCDG	9 cut(s)	97, 263, 352, 355, 415, 430, 442, 483, 509
Lsp1109I	GCAGC	2 cut(s)	134, 162
LweI	GCATC	2 cut(s)	166, 512
MaeI	CTAG	1 cut(s)	180
MaeII	ACGT	1 cut(s)	66
MalI	GATC	2 cut(s)	9, 494
MboI	GATC	2 cut(s)	7, 492
MboII	GAAGA	2 cut(s)	16, 444
MlsI	TGGCCA	1 cut(s)	266
MluCI	AATT	3 cut(s)	117, 301, 457
MluNI	TGGCCA	1 cut(s)	266
MmeI	TCCRAC	2 cut(s)	178, 432
MnlI	CCTC	5 cut(s)	100, 182, 194, 534, 537
Mox20I	TGGCCA	1 cut(s)	266
Mph1103I	ATGCAT	2 cut(s)	282, 392
MscI	TGGCCA	1 cut(s)	266
MseI	TTAA	2 cut(s)	123, 440
MslI	CAYNNNNRTG	2 cut(s)	404, 508
Msp20I	TGGCCA	1 cut(s)	266
MspI	CCGG	3 cut(s)	250, 402, 417
MspR9I	CCNGG	3 cut(s)	251, 417, 418
Mva1269I	GAATGC	1 cut(s)	280
MwoI	GCNNNNNNNGC	1 cut(s)	144
NciI	CCSGG	3 cut(s)	251, 417, 418
NdeI	CATATG	1 cut(s)	537
NdeII	GATC	2 cut(s)	7, 492
NlaIII	CATG	3 cut(s)	280, 361, 390
NlaIV	GGNNCC	1 cut(s)	310
NsiI	ATGCAT	2 cut(s)	282, 392
PceI	AGGCCT	1 cut(s)	547
PctI	GAATGC	1 cut(s)	280
PflMI	CCANNNNNTGG	1 cut(s)	476
PkrI	GCNGC	2 cut(s)	149, 152
Ppu21I	YACGTR	1 cut(s)	67
PsiI	TTATAA	1 cut(s)	351
PspN4I	GGNNCC	1 cut(s)	310
PstI	CTGCAG	1 cut(s)	152
RsaI	GTAC	2 cut(s)	113, 230
RsaNI	GTAC	2 cut(s)	112, 229
RseI	CAYNNNNRTG	2 cut(s)	404, 508
SaqAI	TTAA	2 cut(s)	123, 440
SatI	GCNGC	2 cut(s)	148, 151
Sau3AI	GATC	2 cut(s)	7, 492
ScrFI	CCNGG	3 cut(s)	251, 417, 418
SetI	ASST	4 cut(s)	69, 205, 371, 447
SfaNI	GCATC	2 cut(s)	166, 512
SfcI	CTRYAG	2 cut(s)	141, 148
SmaI	CCCGGG	1 cut(s)	418
SmiMI	CAYNNNNRTG	2 cut(s)	404, 508
SnaBI	TACGTA	1 cut(s)	67
Sse9I	AATT	3 cut(s)	117, 301, 457
SseBI	AGGCCT	1 cut(s)	547
SsiI	CCGC	1 cut(s)	81
SspMI	CTAG	1 cut(s)	180
StuI	AGGCCT	1 cut(s)	547
StyD4I	CCNGG	3 cut(s)	249, 415, 416
TaaI	ACNGT	3 cut(s)	377, 490, 528
TaiI	ACGT	1 cut(s)	69
TaqI	TCGA	3 cut(s)	244, 517, 551
TasI	AATT	3 cut(s)	117, 301, 457
Tru1I	TTAA	2 cut(s)	123, 440
Tru9I	TTAA	2 cut(s)	123, 440
TscAI	CASTG	2 cut(s)	477, 493
TseI	GCWGC	2 cut(s)	147, 150
TspDTI	ATGAA	1 cut(s)	78
TspMI	CCCGGG	1 cut(s)	416
TspRI	CASTG	2 cut(s)	477, 493
Van91I	CCANNNNNTGG	1 cut(s)	476
XcmI	CCANNNNNNNNNTGG	1 cut(s)	319
XmaI	CCCGGG	1 cut(s)	416
XspI	CTAG	1 cut(s)	180
Zsp2I	ATGCAT	2 cut(s)	282, 392

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