Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr12

Orthogroup ID

OG0001197

Physical Location & Seq

Genomic Coordinates Reverse (-)

28563990 .. 28566712

Gene Structure 2723 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD12G1205000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGGAAACTACTGAGAGCGAGAAACAAAACATGAATTCCAATGTGACAGTTTCTGAGTCTGATGGGAAGAGCTTGCTGGAGAACTCGGAGATTGAGAGCTTCTATCAGAGACTTATTAAGCTGCATAACTCATCTGGGATCAACCTTGTTTTTGATCTCAGACAATCCATGCTGGACTTGCATTTGTGTTACAAAGAAGTTACTGCAAGAGGAGGGTTTATTCAGGTTACCGCTGATGAGAGATGGGGCGAAGTTGCACTCGCCTTAAAATTGGATGGGGACAATCTGCAGGATCCTCAACCTCTCTTAAACCTTTATGTACACATTCTCTACCAGTATGAAAAACTTTACTACTACAGGGAACCTCATGTGAAAGCTGCTTTTACTCTAGGTCATGCTTTTTATAATACTGGGGATGTCTCAGCAATTGAAAGGAAGTGTAGGGACAATTCATCCCAGATGTTACTGAATCTTGAAAATGCTCTTGTGGAGAAGAAGGTGGCGAAGGAGATGAATTGGCAACCAACATTGATAGGTTCTACATCTGCAGAACAGAAGCAGTTCCCCCAGCTGCACTCACAGAAGAAAGAGATGAAAAGACGTCGTGGTTTTCCACGAGGGACACAAAGTGCTTATACTATCTTCCTCAGGAAAGAATGCGAGCGGTTGAAAAATTCTGCTTCAGAGCAACTTAAGGGTCAAAGGATCTTAGACTTGGCCGTCAAGGCATGGAGGTGCCTCTCTGAGAGTGAGAAACAGCCATATATTGAGGCAAGTAAGAGGGTTAATGAAAAAAGAGCGGCTCAAGAAATGACGGCTGATGAGGAAAACCATGGCATGCAAAATGCAGAAAGAGGGAAGAAGCCTTCACATTCACACAACGGGAACTGCCGCGCGGCATTGCAATCTGATACAGAAAAATCCTGTGTTCAAAATCAAGCAGTGAATTTTCAAGAAAGTCTCCTAGAAGGGATCGACTGGAGTAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006355 GO:0008150 GO:0009507 GO:0009536 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ARID HMG_box HMG_box_2

Protein Analysis

330

Amino Acids

37.71

Weight (kDa)

7.12

Isoelectric Point (pI)

49.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ARID	PF01388	32 - 114	2.3e-11	ARID/BRIGHT DNA binding domain
HMG_box_2	PF09011	205 - 271	5.2e-07	HMG-box 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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001197)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g07580 FvH4_6g07580 FvH4_6g07580 FvH4_6g07580 FvH4_6g07580 FvH4_6g07580 FvH4_6g07580 FvH4_6g07580 FvH4_6g07580 FvH4_6g07580
malus_domestica	MD04G1192900.v1.1 MD12G1204900.v1.1 MD12G1205000.v1.1
prunus_persica	Prupe.6G312100_v2.0.a1 Prupe.6G312100_v2.0.a1 Prupe.8G133200_v2.0.a1
pyrus_communis	pycom04g17020
rosa_chinensis	RchiOBHm_Chr2g0141791 RchiOBHm_Chr3g0457251 RchiOBHm_Chr4g0385001 RchiOBHm_Chr4g0403641 RchiOBHm_Chr7g0230301
rosa_laevigata	RLG00000025239 RLG00000028879
rosa_multiflora	Rmu_co8006356.1_g000001 Rmu_sc0001700.1_g000022 Rmu_sc0024999.1_g000001
rosa_roxburghii	Rroxscaffold_1G00021260 Rroxscaffold_2G00110110 Rroxscaffold_2G00138210 Rroxscaffold_5G00336070 Rroxscaffold_5G00364990 Rroxscaffold_5G00371660 Rroxscaffold_6G00422040 Rroxscaffold_6G00422070 Rroxscaffold_7G00210610
rosa_rugosa	Rorug03G0019600 Rorug04G0448000 Rorug07G0240100.1
rosa_samantha	Rh2AG158300 Rh2AG504600 Rh2CG490600 Rh2DG163500 Rh2DG673200 Rh3AG079500 Rh3BG081200 Rh3CG081600 Rh3CG370900 Rh3DG083200 Rh4DG031800 Rh4DG287000 Rh5DG474000 Rh7AG251600 Rh7AG400700 Rh7AG488300 Rh7CG268400
rosa_wichuraiana	Rw3G006850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	405
AasI	GACNNNNNNGTC	1 cut(s)	719
AatII	GACGTC	1 cut(s)	604
AccB1I	GGYRCC	1 cut(s)	735
AccBSI	CCGCTC	2 cut(s)	664, 800
AccII	CGCG	2 cut(s)	894, 896
AciI	CCGC	5 cut(s)	231, 664, 800, 892, 896
AclWI	GGATC	5 cut(s)	146, 287, 300, 713, 980
AcoI	YGGCCR	1 cut(s)	717
AcsI	RAATTY	3 cut(s)	34, 673, 946
AcuI	CTGAAG	1 cut(s)	666
AcyI	GRCGYC	1 cut(s)	601
AdeI	CACNNNGTG	1 cut(s)	629
AfaI	GTAC	1 cut(s)	321
AflII	CTTAAG	1 cut(s)	692
AgsI	TTSAA	5 cut(s)	431, 476, 670, 932, 953
AluBI	AGCT	5 cut(s)	72, 99, 121, 377, 571
AluI	AGCT	5 cut(s)	72, 99, 121, 377, 571
Alw26I	GTCTC	3 cut(s)	103, 424, 965
AlwI	GGATC	5 cut(s)	146, 287, 300, 713, 980
AlwNI	CAGNNNCTG	1 cut(s)	53
AoxI	GGCC	1 cut(s)	717
ApeKI	GCWGC	3 cut(s)	121, 377, 571
ApoI	RAATTY	3 cut(s)	34, 673, 946
Asp700I	GAANNNNTTC	1 cut(s)	560
AspLEI	GCGC	1 cut(s)	896
AxyI	CCTNAGG	1 cut(s)	647
BamHI	GGATCC	1 cut(s)	292
BanI	GGYRCC	1 cut(s)	735
BauI	CACGAG	1 cut(s)	615
BbvI	GCAGC	3 cut(s)	108, 364, 558
BccI	CCATC	3 cut(s)	56, 237, 269
BceAI	ACGGC	2 cut(s)	704, 831
BcoDI	GTCTC	3 cut(s)	103, 424, 965
BfaI	CTAG	2 cut(s)	389, 965
BfmI	CTRYAG	3 cut(s)	287, 355, 546
BfrI	CTTAAG	1 cut(s)	692
BglI	GCCNNNNNGGC	1 cut(s)	725
BisI	GCNGC	6 cut(s)	122, 378, 572, 801, 892, 897
BlsI	GCNGC	6 cut(s)	123, 379, 573, 802, 893, 898
BmiI	GGNNCC	3 cut(s)	294, 363, 737
BmrI	ACTGGG	1 cut(s)	420
BmuI	ACTGGG	1 cut(s)	420
BpmI	CTGGAG	1 cut(s)	98
BpuEI	CTTGAG	1 cut(s)	789
BsaHI	GRCGYC	1 cut(s)	601
BsaJI	CCNNGG	1 cut(s)	832
Bse1I	ACTGG	3 cut(s)	334, 415, 983
Bse21I	CCTNAGG	1 cut(s)	647
Bse3DI	GCAATG	1 cut(s)	899
BseDI	CCNNGG	1 cut(s)	832
BseGI	GGATG	3 cut(s)	280, 421, 452
BseMI	GCAATG	1 cut(s)	899
BseMII	CTCAG	5 cut(s)	45, 172, 435, 661, 735
BseNI	ACTGG	3 cut(s)	334, 415, 983
BseRI	GAGGAG	1 cut(s)	225
BseXI	GCAGC	3 cut(s)	108, 364, 558
BseYI	CCCAGC	1 cut(s)	567
BsgI	GTGCAG	1 cut(s)	557
Bsh1236I	CGCG	2 cut(s)	894, 896
BshFI	GGCC	1 cut(s)	719
BshNI	GGYRCC	1 cut(s)	735
BslFI	GGGAC	3 cut(s)	293, 458, 634
BsmAI	GTCTC	3 cut(s)	103, 424, 965
BsmFI	GGGAC	3 cut(s)	293, 458, 634
BsmI	GAATGC	1 cut(s)	662
BsnI	GGCC	1 cut(s)	719
Bsp1407I	TGTACA	1 cut(s)	319
Bsp143I	GATC	5 cut(s)	138, 154, 292, 705, 972
Bsp19I	CCATGG	1 cut(s)	832
BspACI	CCGC	5 cut(s)	231, 664, 800, 892, 896
BspANI	GGCC	1 cut(s)	719
BspCNI	CTCAG	6 cut(s)	4, 46, 171, 434, 660, 736
BspFNI	CGCG	2 cut(s)	894, 896
BspLI	GGNNCC	3 cut(s)	294, 363, 737
BspMAI	CTGCAG	2 cut(s)	291, 550
BspPI	GGATC	5 cut(s)	146, 287, 300, 713, 980
BspQI	GCTCTTC	1 cut(s)	62
BspT107I	GGYRCC	1 cut(s)	735
BspTI	CTTAAG	1 cut(s)	692
BsrBI	CCGCTC	2 cut(s)	664, 800
BsrDI	GCAATG	1 cut(s)	899
BsrGI	TGTACA	1 cut(s)	319
BsrI	ACTGG	3 cut(s)	334, 415, 983
BssECI	CCNNGG	1 cut(s)	832
BssMI	GATC	5 cut(s)	138, 154, 292, 705, 972
BssNI	GRCGYC	1 cut(s)	601
BssSI	CACGAG	1 cut(s)	615
BssT1I	CCWWGG	1 cut(s)	832
Bst2BI	CACGAG	1 cut(s)	615
Bst4CI	ACNGT	1 cut(s)	49
Bst6I	CTCTTC	1 cut(s)	62
BstACI	GRCGYC	1 cut(s)	601
BstAFI	CTTAAG	1 cut(s)	692
BstAUI	TGTACA	1 cut(s)	319
BstC8I	GCNNGC	3 cut(s)	74, 662, 839
BstDEI	CTNAG	7 cut(s)	12, 54, 158, 421, 647, 709, 744
BstDSI	CCRYGG	1 cut(s)	832
BstEII	GGTNACC	1 cut(s)	226
BstF5I	GGATG	3 cut(s)	280, 421, 452
BstFNI	CGCG	2 cut(s)	894, 896
BstHHI	GCGC	1 cut(s)	896
BstKTI	GATC	5 cut(s)	141, 157, 295, 708, 975
BstMAI	GTCTC	3 cut(s)	103, 424, 965
BstMBI	GATC	5 cut(s)	138, 154, 292, 705, 972
BstMWI	GCNNNNNNNGC	2 cut(s)	178, 725
BstNSI	RCATGY	1 cut(s)	841
BstPI	GGTNACC	1 cut(s)	226
BstSFI	CTRYAG	3 cut(s)	287, 355, 546
BstUI	CGCG	2 cut(s)	894, 896
BstV1I	GCAGC	3 cut(s)	108, 364, 558
BstX2I	RGATCY	2 cut(s)	292, 705
BstYI	RGATCY	2 cut(s)	292, 705
Bsu36I	CCTNAGG	1 cut(s)	647
BsuRI	GGCC	1 cut(s)	719
BtgI	CCRYGG	1 cut(s)	832
BtsCI	GGATG	3 cut(s)	280, 421, 452
BtsI	GCAGTG	1 cut(s)	948
BtsIMutI	CAGTG	1 cut(s)	948
Cac8I	GCNNGC	3 cut(s)	74, 662, 839
CaiI	CAGNNNCTG	1 cut(s)	53
CfoI	GCGC	1 cut(s)	896
Csp6I	GTAC	1 cut(s)	320
CviAII	CATG	7 cut(s)	31, 169, 368, 395, 729, 833, 838
CviQI	GTAC	1 cut(s)	320
DdeI	CTNAG	7 cut(s)	12, 54, 158, 421, 647, 709, 744
DpnI	GATC	5 cut(s)	140, 156, 294, 707, 974
DpnII	GATC	5 cut(s)	138, 154, 292, 705, 972
DraIII	CACNNNGTG	1 cut(s)	629
DrdI	GACNNNNNNGTC	1 cut(s)	719
DseDI	GACNNNNNNGTC	1 cut(s)	719
EaeI	YGGCCR	1 cut(s)	717
Eam1104I	CTCTTC	1 cut(s)	62
EarI	CTCTTC	1 cut(s)	62
Eco130I	CCWWGG	1 cut(s)	832
Eco57I	CTGAAG	1 cut(s)	666
Eco81I	CCTNAGG	1 cut(s)	647
Eco91I	GGTNACC	1 cut(s)	226
EcoO65I	GGTNACC	1 cut(s)	226
EcoRI	GAATTC	1 cut(s)	34
EcoT14I	CCWWGG	1 cut(s)	832
ErhI	CCWWGG	1 cut(s)	832
FaeI	CATG	7 cut(s)	34, 172, 371, 398, 732, 836, 841
FaqI	GGGAC	3 cut(s)	293, 458, 634
FatI	CATG	7 cut(s)	30, 168, 367, 394, 728, 832, 837
Fnu4HI	GCNGC	6 cut(s)	122, 378, 572, 801, 892, 897
FokI	GGATG	3 cut(s)	287, 428, 439
Fsp4HI	GCNGC	6 cut(s)	122, 378, 572, 801, 892, 897
FspBI	CTAG	2 cut(s)	389, 965
GlaI	GCGC	1 cut(s)	895
GluI	GCNGC	6 cut(s)	122, 378, 572, 801, 892, 897
GsaI	CCCAGC	1 cut(s)	571
GsuI	CTGGAG	1 cut(s)	98
HaeIII	GGCC	1 cut(s)	719
HhaI	GCGC	1 cut(s)	896
Hin1I	GRCGYC	1 cut(s)	601
Hin1II	CATG	7 cut(s)	34, 172, 371, 398, 732, 836, 841
Hin6I	GCGC	1 cut(s)	894
HinP1I	GCGC	1 cut(s)	894
HinfI	GANTC	2 cut(s)	56, 469
Hpy166II	GTNNAC	1 cut(s)	322
Hpy188I	TCNGA	8 cut(s)	55, 61, 88, 108, 161, 685, 745, 910
Hpy188III	TCNNGA	4 cut(s)	473, 649, 806, 953
Hpy8I	GTNNAC	1 cut(s)	322
Hpy99I	CGWCG	1 cut(s)	606
HpyAV	CCTTC	4 cut(s)	490, 499, 876, 962
HpyCH4III	ACNGT	1 cut(s)	49
HpyCH4IV	ACGT	1 cut(s)	601
HpyF10VI	GCNNNNNNNGC	2 cut(s)	178, 725
HpyF3I	CTNAG	7 cut(s)	12, 54, 158, 421, 647, 709, 744
HpySE526I	ACGT	1 cut(s)	601
Hsp92I	GRCGYC	1 cut(s)	601
Hsp92II	CATG	7 cut(s)	34, 172, 371, 398, 732, 836, 841
HspAI	GCGC	1 cut(s)	894
Kzo9I	GATC	5 cut(s)	138, 154, 292, 705, 972
LguI	GCTCTTC	1 cut(s)	62
Lsp1109I	GCAGC	3 cut(s)	108, 364, 558
MaeI	CTAG	2 cut(s)	389, 965
MaeII	ACGT	1 cut(s)	601
MaeIII	GTNAC	5 cut(s)	43, 188, 199, 226, 462
MalI	GATC	5 cut(s)	140, 156, 294, 707, 974
MbiI	CCGCTC	2 cut(s)	664, 800
MboI	GATC	5 cut(s)	138, 154, 292, 705, 972
MboII	GAAGA	5 cut(s)	79, 505, 595, 634, 871
MfeI	CAATTG	1 cut(s)	426
MflI	RGATCY	2 cut(s)	292, 705
MluCI	AATT	7 cut(s)	34, 269, 426, 448, 514, 673, 946
MlyI	GAGTC	1 cut(s)	65
MroXI	GAANNNNTTC	1 cut(s)	560
MseI	TTAA	5 cut(s)	117, 266, 308, 693, 786
MslI	CAYNNNNRTG	1 cut(s)	733
MspA1I	CMGCKG	2 cut(s)	233, 571
MspCI	CTTAAG	1 cut(s)	692
MunI	CAATTG	1 cut(s)	426
Mva1269I	GAATGC	1 cut(s)	662
MvnI	CGCG	2 cut(s)	894, 896
MwoI	GCNNNNNNNGC	2 cut(s)	178, 725
NcoI	CCATGG	1 cut(s)	832
NdeII	GATC	5 cut(s)	138, 154, 292, 705, 972
NlaIII	CATG	7 cut(s)	34, 172, 371, 398, 732, 836, 841
NlaIV	GGNNCC	3 cut(s)	294, 363, 737
NmuCI	GTSAC	1 cut(s)	43
NspI	RCATGY	1 cut(s)	841
PaeI	GCATGC	1 cut(s)	841
PciSI	GCTCTTC	1 cut(s)	62
PctI	GAATGC	1 cut(s)	662
PdmI	GAANNNNTTC	1 cut(s)	560
PfeI	GAWTC	1 cut(s)	469
PkrI	GCNGC	6 cut(s)	123, 379, 573, 802, 893, 898
PleI	GAGTC	1 cut(s)	64
PpsI	GAGTC	1 cut(s)	64
PsiI	TTATAA	1 cut(s)	405
PspEI	GGTNACC	1 cut(s)	226
PspFI	CCCAGC	1 cut(s)	567
PspN4I	GGNNCC	3 cut(s)	294, 363, 737
PstI	CTGCAG	2 cut(s)	291, 550
PstNI	CAGNNNCTG	1 cut(s)	53
PsuI	RGATCY	2 cut(s)	292, 705
PvuII	CAGCTG	1 cut(s)	571
RsaI	GTAC	1 cut(s)	321
RsaNI	GTAC	1 cut(s)	320
RseI	CAYNNNNRTG	1 cut(s)	733
SapI	GCTCTTC	1 cut(s)	62
SaqAI	TTAA	5 cut(s)	117, 266, 308, 693, 786
SatI	GCNGC	6 cut(s)	122, 378, 572, 801, 892, 897
Sau3AI	GATC	5 cut(s)	138, 154, 292, 705, 972
SchI	GAGTC	1 cut(s)	65
SfcI	CTRYAG	3 cut(s)	287, 355, 546
SmiMI	CAYNNNNRTG	1 cut(s)	733
SmlI	CTYRAG	2 cut(s)	692, 804
SmoI	CTYRAG	2 cut(s)	692, 804
SphI	GCATGC	1 cut(s)	841
Sse9I	AATT	7 cut(s)	34, 269, 426, 448, 514, 673, 946
SsiI	CCGC	5 cut(s)	231, 664, 800, 892, 896
SspMI	CTAG	2 cut(s)	389, 965
StyI	CCWWGG	1 cut(s)	832
TaaI	ACNGT	1 cut(s)	49
TaiI	ACGT	1 cut(s)	604
TaqI	TCGA	1 cut(s)	975
TasI	AATT	7 cut(s)	34, 269, 426, 448, 514, 673, 946
TatI	WGTACW	1 cut(s)	319
TauI	GCSGC	3 cut(s)	803, 894, 899
TfiI	GAWTC	1 cut(s)	469
Tru1I	TTAA	5 cut(s)	117, 266, 308, 693, 786
Tru9I	TTAA	5 cut(s)	117, 266, 308, 693, 786
TscAI	CASTG	1 cut(s)	948
TseFI	GTSAC	1 cut(s)	43
TseI	GCWGC	3 cut(s)	121, 377, 571
Tsp45I	GTSAC	1 cut(s)	43
TspDTI	ATGAA	6 cut(s)	47, 354, 441, 527, 608, 804
TspRI	CASTG	1 cut(s)	948
Vha464I	CTTAAG	1 cut(s)	692
XapI	RAATTY	3 cut(s)	34, 673, 946
XceI	RCATGY	1 cut(s)	841
XmnI	GAANNNNTTC	1 cut(s)	560
XspI	CTAG	2 cut(s)	389, 965
ZraI	GACGTC	1 cut(s)	602

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