Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0010004

Physical Location & Seq

Genomic Coordinates Reverse (-)

25592438 .. 25596956

Gene Structure 4519 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG245400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1116 bp

ATGGATCACCCACCGACCACCGCCAAAACCAACGGCTCAGATTCCTCCTCCTCCTCCTCCGACCTCCGCTACCAGTCCGGCTTCCACAACCACTTCTCCTCCGAAGCTCTCCCCGGCGCTCTCCCCCTCGGCCAGAGCAACCCCCTCCTCTGCCCCTACGGCCTCTACGCCGAGCAACTCTCCGGCACCTCCTTCACCTCCCCCCGCAAGCTCAACCTCCGCACCTGGCTCTACCGCGTCAAGCCCTCCGTCACTCACGAGCCCTTCCAGCCGCTCCGGCCCAGCCACGGGAGACTCGTCAGCGAGTTCAACGACTCCAACAGCTCCACCACTCCGACTCAGCTGAGGTGGAAGCCGGTCGAGATTCCGGAGACGCCGACCGACTTTGTGCGGGGGTTGTACACCGTGTGCGGAGCTGGGAGCTCGTTCCTCCGCCATGGCTTTGCTATTCACATGTACACTGCGAACAAGTCGATGGATGATCGTGCCTTTTGCAATGCTGATGGAGATTTCTTGATAGTCCCCCAATTAGGAAGGCTCTGGATCACTACAGAATGCGGAAGATTGATAGTTTCTCCTGGTGAAATTGCTGTATTACCTCAAGGATTTAGATTTGCAGTAGATCTTCCTGATGGCCCTTCACGAGGTTATGTAGCTGAGGTTTTTGGCACCCATTTTCAACTCCCTGATCTTGGCCCAATAGGAGCTAATGGCCTTGCTGCTCCAAGGGATTTTCTTGTTCCCACAGCATGGTTTGAAAAAACTACCCGTCCAGGCTACATCATTATACAAAAATTTGGTGGAGAACTTTTTACTGCAAAGCAGGATTTCTCTCCATTTAATGTAGTTGCTTGGCATGGTAATTATGCTCCATATAAGTATGATCTGACGAAGTTCTGCCCATTCAACACAGTCTTGTTTGATCATGGTGATCCTTCTGTAAATACAGTATTGACAGCACCAACTGATAAACCTGGTGTTGCATTGCTGGATTTTGCCATTTTCCCTCCTCGATGGTTGGTTGCTGAGCATACATTCCGACCTCCATACTACCATCGTAATTGTATGAGTGAATTTATGGGACTCATTTACGGTGGATATGAGGTAATATCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004411 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006520 GO:0006570 GO:0006572 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009063 GO:0009072 GO:0009074 GO:0009987 GO:0016054 GO:0016491 GO:0016701 GO:0016702 GO:0018958 GO:0019336 GO:0019439 GO:0019752 GO:0032787 GO:0043436 GO:0044237 GO:0044238 GO:0044248 GO:0044281 GO:0044282 GO:0044424 GO:0044444 GO:0044464 GO:0046395 GO:0051213 GO:0055114 GO:0071704 GO:0072329 GO:1901360 GO:1901361 GO:1901564 GO:1901565 GO:1901575 GO:1901605 GO:1901606 GO:1901615 GO:1901616 GO:1901999 GO:1902000

KEGG Pathways

Metabolic & Signaling

ko00350 ko00643 ko01100 ko01120 map00350 map00643 map01100 map01120

Pfam Domains

Protein Families

HgmA

Protein Analysis

371

Amino Acids

41.19

Weight (kDa)

6.45

Isoelectric Point (pI)

46.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HgmA_N	PF20510	23 - 296	1.3e-129	Homogentisate 1,2-dioxygenase N-terminal
HgmA_C	PF04209	298 - 368	1.4e-38	Homogentisate 1,2-dioxygenase C-terminal

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

Tree File

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Orthologous Genes (Group: OG0010004)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G54080 AT5G54080
fragaria_vesca	FvH4_3g19020 FvH4_3g19020 FvH4_3g19020
malus_domestica	MD03G1237300.v1.1 MD03G1237500.v1.1
prunus_persica	Prupe.4G172100_v2.0.a1
pyrus_communis	pycom03g18320
rosa_chinensis	RchiOBHm_Chr5g0031821
rosa_laevigata	RLG00000033349
rosa_multiflora	Rmu_co8454513.1_g000001 Rmu_sc0006847.1_g000029
rosa_roxburghii	Rroxscaffold_1G00048450
rosa_rugosa	Rorug05G0127800 Rorug05G0127900
rosa_samantha	Rh5AG222100 Rh5BG222100 Rh5CG245400 Rh5DG227000
rosa_wichuraiana	Rw5G020250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	185, 668
AccB7I	CCANNNNNTGG	1 cut(s)	750
AccBSI	CCGCTC	1 cut(s)	274
AccII	CGCG	1 cut(s)	237
AccIII	TCCGGA	1 cut(s)	367
AclWI	GGATC	3 cut(s)	12, 551, 926
AcoI	YGGCCR	1 cut(s)	130
AcsI	RAATTY	2 cut(s)	794, 1073
AcyI	GRCGYC	1 cut(s)	374
AdeI	CACNNNGTG	1 cut(s)	408
AfaI	GTAC	2 cut(s)	401, 458
AfiI	CCNNNNNNNGG	6 cut(s)	287, 288, 530, 644, 692, 750
AflIII	ACRYGT	1 cut(s)	453
AgsI	TTSAA	4 cut(s)	310, 680, 758, 907
AjnI	CCWGG	4 cut(s)	224, 577, 772, 973
AluBI	AGCT	8 cut(s)	107, 211, 324, 343, 416, 423, 656, 707
AluI	AGCT	8 cut(s)	107, 211, 324, 343, 416, 423, 656, 707
Alw21I	GWGCWC	1 cut(s)	425
Alw26I	GTCTC	2 cut(s)	286, 365
AlwI	GGATC	3 cut(s)	12, 551, 926
Aor13HI	TCCGGA	1 cut(s)	367
AoxI	GGCC	6 cut(s)	130, 160, 278, 634, 694, 712
ApeKI	GCWGC	1 cut(s)	719
ApoI	RAATTY	2 cut(s)	794, 1073
AspLEI	GCGC	1 cut(s)	119
AspS9I	GGNCC	3 cut(s)	279, 635, 695
AsuC2I	CCSGG	1 cut(s)	114
AsuHPI	GGTGA	3 cut(s)	187, 593, 941
BanI	GGYRCC	2 cut(s)	185, 668
BanII	GRGCYC	2 cut(s)	264, 425
BauI	CACGAG	2 cut(s)	257, 642
Bbv12I	GWGCWC	1 cut(s)	425
BbvCI	CCTCAGC	2 cut(s)	344, 657
BbvI	GCAGC	1 cut(s)	706
BccI	CCATC	5 cut(s)	469, 497, 626, 1008, 1062
BceAI	ACGGC	2 cut(s)	49, 175
BciT130I	CCWGG	4 cut(s)	226, 579, 774, 975
BclI	TGATCA	1 cut(s)	922
BcnI	CCSGG	1 cut(s)	114
BcoDI	GTCTC	2 cut(s)	286, 365
BfmI	CTRYAG	1 cut(s)	549
BfoI	RGCGCY	1 cut(s)	120
BglI	GCCNNNNNGGC	2 cut(s)	159, 277
BglII	AGATCT	1 cut(s)	622
BisI	GCNGC	2 cut(s)	272, 720
BlpI	GCTNAGC	1 cut(s)	1026
BlsI	GCNGC	2 cut(s)	273, 721
Bme1390I	CCNGG	5 cut(s)	114, 226, 579, 774, 975
BmgT120I	GGNCC	3 cut(s)	279, 635, 695
BmiI	GGNNCC	2 cut(s)	187, 670
BmrFI	CCNGG	5 cut(s)	114, 226, 579, 774, 975
BplI	GAGNNNNNCTC	2 cut(s)	164, 196
Bpu10I	CCTNAGC	2 cut(s)	344, 657
Bpu1102I	GCTNAGC	1 cut(s)	1026
BpuEI	CTTGAG	1 cut(s)	585
BpuMI	CCSGG	1 cut(s)	114
BsaHI	GRCGYC	1 cut(s)	374
BsaJI	CCNNGG	5 cut(s)	112, 127, 286, 436, 725
BsaWI	WCCGGW	1 cut(s)	367
BsaXI	ACNNNNNCTCC	4 cut(s)	80, 83, 110, 113
Bsc4I	CCNNNNNNNGG	6 cut(s)	287, 288, 530, 644, 692, 750
Bse118I	RCCGGY	1 cut(s)	355
Bse1I	ACTGG	1 cut(s)	73
Bse3DI	GCAATG	2 cut(s)	502, 983
BseAI	TCCGGA	1 cut(s)	367
BseBI	CCWGG	4 cut(s)	226, 579, 774, 975
BseDI	CCNNGG	5 cut(s)	112, 127, 286, 436, 725
BseGI	GGATG	1 cut(s)	484
BseLI	CCNNNNNNNGG	6 cut(s)	287, 288, 530, 644, 692, 750
BseMI	GCAATG	2 cut(s)	502, 983
BseMII	CTCAG	5 cut(s)	51, 335, 353, 648, 1017
BseNI	ACTGG	1 cut(s)	73
BseRI	GAGGAG	7 cut(s)	37, 40, 43, 46, 88, 137, 999
BseXI	GCAGC	1 cut(s)	706
BseYI	CCCAGC	2 cut(s)	281, 416
Bsh1236I	CGCG	1 cut(s)	237
Bsh1285I	CGRYCG	2 cut(s)	360, 381
BshFI	GGCC	6 cut(s)	132, 162, 280, 636, 696, 714
BshNI	GGYRCC	2 cut(s)	185, 668
BsiEI	CGRYCG	2 cut(s)	360, 381
BsiHKAI	GWGCWC	1 cut(s)	425
BsiSI	CCGG	6 cut(s)	78, 114, 183, 277, 356, 368
BslFI	GGGAC	2 cut(s)	506, 1095
BslI	CCNNNNNNNGG	6 cut(s)	287, 288, 530, 644, 692, 750
BsmAI	GTCTC	2 cut(s)	286, 365
BsmBI	CGTCTC	1 cut(s)	365
BsmFI	GGGAC	2 cut(s)	506, 1095
BsmI	GAATGC	1 cut(s)	560
BsnI	GGCC	6 cut(s)	132, 162, 280, 636, 696, 714
Bsp1286I	GDGCHC	2 cut(s)	264, 425
Bsp13I	TCCGGA	1 cut(s)	367
Bsp1407I	TGTACA	2 cut(s)	399, 456
Bsp143I	GATC	8 cut(s)	4, 481, 543, 622, 688, 883, 922, 931
Bsp1720I	GCTNAGC	1 cut(s)	1026
Bsp19I	CCATGG	1 cut(s)	436
BspANI	GGCC	6 cut(s)	132, 162, 280, 636, 696, 714
BspCNI	CTCAG	5 cut(s)	50, 336, 352, 649, 1018
BspEI	TCCGGA	1 cut(s)	367
BspFNI	CGCG	1 cut(s)	237
BspLI	GGNNCC	2 cut(s)	187, 670
BspPI	GGATC	3 cut(s)	12, 551, 926
BspT107I	GGYRCC	2 cut(s)	185, 668
BsrBI	CCGCTC	1 cut(s)	274
BsrDI	GCAATG	2 cut(s)	502, 983
BsrFI	RCCGGY	1 cut(s)	355
BsrGI	TGTACA	2 cut(s)	399, 456
BsrI	ACTGG	1 cut(s)	73
BssAI	RCCGGY	1 cut(s)	355
BssECI	CCNNGG	5 cut(s)	112, 127, 286, 436, 725
BssMI	GATC	8 cut(s)	4, 481, 543, 622, 688, 883, 922, 931
BssNI	GRCGYC	1 cut(s)	374
BssSI	CACGAG	2 cut(s)	257, 642
BssT1I	CCWWGG	2 cut(s)	436, 725
Bst2BI	CACGAG	2 cut(s)	257, 642
Bst2UI	CCWGG	4 cut(s)	226, 579, 774, 975
Bst4CI	ACNGT	4 cut(s)	406, 913, 949, 1094
BstACI	GRCGYC	1 cut(s)	374
BstAUI	TGTACA	2 cut(s)	399, 456
BstC8I	GCNNGC	1 cut(s)	209
BstDEI	CTNAG	5 cut(s)	37, 339, 344, 657, 1026
BstDSI	CCRYGG	2 cut(s)	286, 436
BstENI	CCTNNNNNAGG	1 cut(s)	642
BstF5I	GGATG	1 cut(s)	484
BstFNI	CGCG	1 cut(s)	237
BstH2I	RGCGCY	1 cut(s)	120
BstHHI	GCGC	1 cut(s)	119
BstKTI	GATC	8 cut(s)	7, 484, 546, 625, 691, 886, 925, 934
BstMAI	GTCTC	2 cut(s)	286, 365
BstMBI	GATC	8 cut(s)	4, 481, 543, 622, 688, 883, 922, 931
BstMCI	CGRYCG	2 cut(s)	360, 381
BstMWI	GCNNNNNNNGC	3 cut(s)	159, 268, 277
BstNI	CCWGG	4 cut(s)	226, 579, 774, 975
BstNSI	RCATGY	1 cut(s)	457
BstSCI	CCNGG	5 cut(s)	112, 224, 577, 772, 973
BstSFI	CTRYAG	1 cut(s)	549
BstUI	CGCG	1 cut(s)	237
BstV1I	GCAGC	1 cut(s)	706
BstX2I	RGATCY	1 cut(s)	622
BstYI	RGATCY	1 cut(s)	622
BsuRI	GGCC	6 cut(s)	132, 162, 280, 636, 696, 714
BtgI	CCRYGG	2 cut(s)	286, 436
BtsCI	GGATG	1 cut(s)	484
BtsI	GCAGTG	1 cut(s)	459
BtsIMutI	CAGTG	1 cut(s)	459
Cac8I	GCNNGC	1 cut(s)	209
CfoI	GCGC	1 cut(s)	119
Cfr10I	RCCGGY	1 cut(s)	355
Cfr13I	GGNCC	3 cut(s)	279, 635, 695
CseI	GACGC	2 cut(s)	226, 382
CsiI	ACCWGGT	1 cut(s)	973
Csp6I	GTAC	2 cut(s)	400, 457
CviAII	CATG	5 cut(s)	437, 454, 750, 857, 926
CviQI	GTAC	2 cut(s)	400, 457
DdeI	CTNAG	5 cut(s)	37, 339, 344, 657, 1026
DpnI	GATC	8 cut(s)	6, 483, 545, 624, 690, 885, 924, 933
DpnII	GATC	8 cut(s)	4, 481, 543, 622, 688, 883, 922, 931
DraIII	CACNNNGTG	1 cut(s)	408
EaeI	YGGCCR	1 cut(s)	130
EciI	GGCGGA	1 cut(s)	422
Ecl136II	GAGCTC	1 cut(s)	423
Eco130I	CCWWGG	2 cut(s)	436, 725
Eco24I	GRGCYC	2 cut(s)	264, 425
Eco53kI	GAGCTC	1 cut(s)	423
EcoICRI	GAGCTC	1 cut(s)	423
EcoNI	CCTNNNNNAGG	1 cut(s)	642
EcoRII	CCWGG	4 cut(s)	224, 577, 772, 973
EcoT14I	CCWWGG	2 cut(s)	436, 725
EcoT38I	GRGCYC	2 cut(s)	264, 425
ErhI	CCWWGG	2 cut(s)	436, 725
Esp3I	CGTCTC	1 cut(s)	365
FaeI	CATG	5 cut(s)	440, 457, 753, 860, 929
FaqI	GGGAC	2 cut(s)	506, 1095
FatI	CATG	5 cut(s)	436, 453, 749, 856, 925
FauI	CCCGC	2 cut(s)	212, 384
FbaI	TGATCA	1 cut(s)	922
Fnu4HI	GCNGC	2 cut(s)	272, 720
FokI	GGATG	1 cut(s)	491
FriOI	GRGCYC	2 cut(s)	264, 425
Fsp4HI	GCNGC	2 cut(s)	272, 720
GlaI	GCGC	1 cut(s)	118
GluI	GCNGC	2 cut(s)	272, 720
GsaI	CCCAGC	2 cut(s)	285, 420
HaeII	RGCGCY	1 cut(s)	120
HaeIII	GGCC	6 cut(s)	132, 162, 280, 636, 696, 714
HapII	CCGG	6 cut(s)	78, 114, 183, 277, 356, 368
HgaI	GACGC	2 cut(s)	226, 382
HhaI	GCGC	1 cut(s)	119
Hin1I	GRCGYC	1 cut(s)	374
Hin1II	CATG	5 cut(s)	440, 457, 753, 860, 929
Hin6I	GCGC	1 cut(s)	117
HinP1I	GCGC	1 cut(s)	117
HinfI	GANTC	6 cut(s)	41, 294, 314, 337, 364, 1083
HpaII	CCGG	6 cut(s)	78, 114, 183, 277, 356, 368
HphI	GGTGA	3 cut(s)	187, 593, 941
Hpy166II	GTNNAC	2 cut(s)	402, 459
Hpy188I	TCNGA	6 cut(s)	40, 61, 103, 336, 888, 1040
Hpy188III	TCNNGA	8 cut(s)	257, 361, 368, 514, 541, 629, 642, 1113
Hpy8I	GTNNAC	2 cut(s)	402, 459
HpyAV	CCTTC	5 cut(s)	202, 274, 528, 648, 945
HpyCH4III	ACNGT	4 cut(s)	406, 913, 949, 1094
HpyCH4V	TGCA	4 cut(s)	495, 617, 818, 983
HpyF10VI	GCNNNNNNNGC	3 cut(s)	159, 268, 277
HpyF3I	CTNAG	5 cut(s)	37, 339, 344, 657, 1026
Hsp92I	GRCGYC	1 cut(s)	374
Hsp92II	CATG	5 cut(s)	440, 457, 753, 860, 929
HspAI	GCGC	1 cut(s)	117
Kpn2I	TCCGGA	1 cut(s)	367
Ksp22I	TGATCA	1 cut(s)	922
Kzo9I	GATC	8 cut(s)	4, 481, 543, 622, 688, 883, 922, 931
LmnI	GCTCC	7 cut(s)	279, 329, 413, 420, 704, 727, 874
Lsp1109I	GCAGC	1 cut(s)	706
MabI	ACCWGGT	1 cut(s)	973
MaeIII	GTNAC	1 cut(s)	250
MalI	GATC	8 cut(s)	6, 483, 545, 624, 690, 885, 924, 933
MbiI	CCGCTC	1 cut(s)	274
MboI	GATC	8 cut(s)	4, 481, 543, 622, 688, 883, 922, 931
MboII	GAAGA	2 cut(s)	573, 617
MflI	RGATCY	1 cut(s)	622
MhlI	GDGCHC	2 cut(s)	264, 425
MluCI	AATT	6 cut(s)	527, 585, 794, 862, 1060, 1073
MlyI	GAGTC	4 cut(s)	288, 308, 331, 1077
MmeI	TCCRAC	4 cut(s)	84, 342, 359, 1063
MroI	TCCGGA	1 cut(s)	367
MseI	TTAA	1 cut(s)	840
MspA1I	CMGCKG	1 cut(s)	343
MspI	CCGG	6 cut(s)	78, 114, 183, 277, 356, 368
MspR9I	CCNGG	5 cut(s)	114, 226, 579, 774, 975
Mva1269I	GAATGC	1 cut(s)	560
MvaI	CCWGG	4 cut(s)	226, 579, 774, 975
MvnI	CGCG	1 cut(s)	237
MwoI	GCNNNNNNNGC	3 cut(s)	159, 268, 277
NciI	CCSGG	1 cut(s)	114
NcoI	CCATGG	1 cut(s)	436
NdeII	GATC	8 cut(s)	4, 481, 543, 622, 688, 883, 922, 931
NlaIII	CATG	5 cut(s)	440, 457, 753, 860, 929
NlaIV	GGNNCC	2 cut(s)	187, 670
NmeAIII	GCCGAG	2 cut(s)	108, 196
NmuCI	GTSAC	1 cut(s)	250
NspI	RCATGY	1 cut(s)	457
PciI	ACATGT	1 cut(s)	453
PcsI	WCGNNNNNNNCGW	1 cut(s)	294
PctI	GAATGC	1 cut(s)	560
PfeI	GAWTC	2 cut(s)	41, 364
PflMI	CCANNNNNTGG	1 cut(s)	750
PkrI	GCNGC	2 cut(s)	273, 721
PleI	GAGTC	4 cut(s)	288, 308, 331, 1077
PpsI	GAGTC	4 cut(s)	288, 308, 331, 1077
PscI	ACATGT	1 cut(s)	453
Psp124BI	GAGCTC	1 cut(s)	425
Psp6I	CCWGG	4 cut(s)	224, 577, 772, 973
PspFI	CCCAGC	2 cut(s)	281, 416
PspGI	CCWGG	4 cut(s)	224, 577, 772, 973
PspN4I	GGNNCC	2 cut(s)	187, 670
PspPI	GGNCC	3 cut(s)	279, 635, 695
PsuI	RGATCY	1 cut(s)	622
PvuII	CAGCTG	1 cut(s)	343
RsaI	GTAC	2 cut(s)	401, 458
RsaNI	GTAC	2 cut(s)	400, 457
SacI	GAGCTC	1 cut(s)	425
SaqAI	TTAA	1 cut(s)	840
SatI	GCNGC	2 cut(s)	272, 720
Sau3AI	GATC	8 cut(s)	4, 481, 543, 622, 688, 883, 922, 931
Sau96I	GGNCC	3 cut(s)	279, 635, 695
SchI	GAGTC	4 cut(s)	288, 308, 331, 1077
ScrFI	CCNGG	5 cut(s)	114, 226, 579, 774, 975
SduI	GDGCHC	2 cut(s)	264, 425
SexAI	ACCWGGT	1 cut(s)	973
SfcI	CTRYAG	1 cut(s)	549
SmlI	CTYRAG	1 cut(s)	600
SmoI	CTYRAG	1 cut(s)	600
Sse9I	AATT	6 cut(s)	527, 585, 794, 862, 1060, 1073
SstI	GAGCTC	1 cut(s)	425
StyD4I	CCNGG	5 cut(s)	112, 224, 577, 772, 973
StyI	CCWWGG	2 cut(s)	436, 725
TaaI	ACNGT	4 cut(s)	406, 913, 949, 1094
TaqI	TCGA	3 cut(s)	360, 473, 1012
TaqII	GACCGA	1 cut(s)	395
TasI	AATT	6 cut(s)	527, 585, 794, 862, 1060, 1073
TatI	WGTACW	2 cut(s)	399, 456
TauI	GCSGC	1 cut(s)	274
TfiI	GAWTC	2 cut(s)	41, 364
Tru1I	TTAA	1 cut(s)	840
Tru9I	TTAA	1 cut(s)	840
TscAI	CASTG	1 cut(s)	466
TseFI	GTSAC	1 cut(s)	250
TseI	GCWGC	1 cut(s)	719
Tsp45I	GTSAC	1 cut(s)	250
TspGWI	ACGGA	1 cut(s)	238
TspRI	CASTG	1 cut(s)	466
Van91I	CCANNNNNTGG	1 cut(s)	750
XagI	CCTNNNNNAGG	1 cut(s)	642
XapI	RAATTY	2 cut(s)	794, 1073
XceI	RCATGY	1 cut(s)	457

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