Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr04

Orthogroup ID

OG0001197

Physical Location & Seq

Genomic Coordinates Reverse (-)

28197887 .. 28201344

Gene Structure 3458 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD04G1192900.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 984 bp

ATGGAAATAAGTGAGAGCGAGAAACAGAACATGAATTCCAATGTGACAGTTTCTGAGTCTGATGGGAAGAGCTTGCTGGAGAACTCGGAGATTGACAGCTTCTATCAGAGACTCAATAAGCTGCATACTTCATCTGGGCTCAACCTTGTTTTTGATCTCAGACAATCAATGCTGGACTTGCATTTGTGTTACAAAGAAGTTACTGCAAGAGGAGGGTTTCTTCAGGTTACCGCTGATGAGAGATGGGGCGAAGTTGCACTCGCCTTAAAATTGGATTGTGACAGTCTGCAGGATTCTCAACCTCTCTTAAACCTTTACGCACTCGTTCTCTACCAGTATGAAAAACTTTACTACTACAGGGAACCTCATGCAAACGCTGCTTCTACTCTAGGTCATGCCAGTTTTTATAATATTGGGGATGTCTCAGCAATGGAAGGGCAGTGTAGGGATAATTCATCTCAGATGTTACCGAGTCTTGAAAGTTCTCATGTGGAGAAGACGACGCCCAAAGAGAATTGTCAACCAATAGGTTCTACATCTGCAGAACAGAAGCAGTTCCCCCAGCTGCACTCCCAGAAAAAAGAGATGAAAAAACGTGGTGGTTTTCCACGAGGGACACAAAGTGCTTATACCATCTTCCTCAGGAAAGAATGTGAGCGGTTGAAAAGTTCTGCTTCGGAGCAACTTAAGGGTCGAAGGGTCTTAGACTTGGCCGTCAGTGCATGGAGGTGCCTCTCTGAGAGTGAGAAACAGCCATATGTTGAGGCAAGTAAGAGGGTTAATGAAAAAAGAGTGGCTCAAGAAATGATGGGTGATGAGGAAAACCAGGGCATGCAAAATGCAGAAAGAGGAAAGAAGCCTTCACGTTCATGGAATGGGAACTGCCGCGCGGCTTTGCAATCTGATACAGAAAAATCATGTGTTCAAAATCTAGCAGTGAACTTTCAAGAAAGTCTCCTAGAAGGGATTGACTGGAGTAAGTAA

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

328

Amino Acids

36.98

Weight (kDa)

5.97

Isoelectric Point (pI)

53.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ARID	PF01388	32 - 114	1.8e-10	ARID/BRIGHT DNA binding domain
HMG_box_2	PF09011	203 - 270	1.1e-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)	408
AasI	GACNNNNNNGTC	1 cut(s)	713
AccB1I	GGYRCC	1 cut(s)	729
AccBSI	CCGCTC	1 cut(s)	658
AccII	CGCG	2 cut(s)	888, 890
AciI	CCGC	4 cut(s)	231, 658, 886, 890
AcoI	YGGCCR	1 cut(s)	711
AcsI	RAATTY	1 cut(s)	34
AcuI	CTGAAG	1 cut(s)	206
AcyI	GRCGYC	1 cut(s)	503
AdeI	CACNNNGTG	1 cut(s)	623
AflII	CTTAAG	1 cut(s)	686
AgsI	TTSAA	4 cut(s)	479, 664, 926, 947
AjnI	CCWGG	1 cut(s)	825
AloI	GAACNNNNNNTCC	2 cut(s)	20, 52
AluBI	AGCT	4 cut(s)	72, 99, 121, 565
AluI	AGCT	4 cut(s)	72, 99, 121, 565
Alw26I	GTCTC	3 cut(s)	103, 427, 959
AlwNI	CAGNNNCTG	1 cut(s)	53
AoxI	GGCC	1 cut(s)	711
ApeKI	GCWGC	3 cut(s)	121, 377, 565
ApoI	RAATTY	1 cut(s)	34
Asp700I	GAANNNNTTC	1 cut(s)	554
AspLEI	GCGC	1 cut(s)	890
AsuHPI	GGTGA	1 cut(s)	824
AxyI	CCTNAGG	1 cut(s)	641
BanI	GGYRCC	1 cut(s)	729
BanII	GRGCYC	1 cut(s)	141
BauI	CACGAG	1 cut(s)	609
BbsI	GAAGAC	1 cut(s)	503
BbvI	GCAGC	3 cut(s)	108, 364, 552
BccI	CCATC	4 cut(s)	56, 237, 641, 802
BceAI	ACGGC	1 cut(s)	698
BciT130I	CCWGG	1 cut(s)	827
BcoDI	GTCTC	3 cut(s)	103, 427, 959
BfaI	CTAG	3 cut(s)	389, 932, 959
BfmI	CTRYAG	3 cut(s)	287, 355, 540
BfrI	CTTAAG	1 cut(s)	686
BisI	GCNGC	5 cut(s)	122, 378, 566, 886, 891
BlsI	GCNGC	5 cut(s)	123, 379, 567, 887, 892
Bme1390I	CCNGG	1 cut(s)	827
BmiI	GGNNCC	2 cut(s)	363, 731
BmrFI	CCNGG	1 cut(s)	827
BpiI	GAAGAC	1 cut(s)	503
BpmI	CTGGAG	1 cut(s)	98
BpuEI	CTTGAG	1 cut(s)	783
BsaHI	GRCGYC	1 cut(s)	503
BsaJI	CCNNGG	1 cut(s)	826
Bse1I	ACTGG	3 cut(s)	334, 399, 977
Bse21I	CCTNAGG	1 cut(s)	641
Bse3DI	GCAATG	1 cut(s)	435
BseBI	CCWGG	1 cut(s)	827
BseDI	CCNNGG	1 cut(s)	826
BseGI	GGATG	1 cut(s)	424
BseMI	GCAATG	1 cut(s)	435
BseMII	CTCAG	6 cut(s)	45, 172, 438, 473, 655, 729
BseNI	ACTGG	3 cut(s)	334, 399, 977
BseRI	GAGGAG	1 cut(s)	225
BseXI	GCAGC	3 cut(s)	108, 364, 552
BseYI	CCCAGC	1 cut(s)	561
BsgI	GTGCAG	1 cut(s)	551
Bsh1236I	CGCG	2 cut(s)	888, 890
BshFI	GGCC	1 cut(s)	713
BshNI	GGYRCC	1 cut(s)	729
BslFI	GGGAC	1 cut(s)	628
BsmAI	GTCTC	3 cut(s)	103, 427, 959
BsmFI	GGGAC	1 cut(s)	628
BsnI	GGCC	1 cut(s)	713
Bsp1286I	GDGCHC	1 cut(s)	141
Bsp143I	GATC	1 cut(s)	154
BspACI	CCGC	4 cut(s)	231, 658, 886, 890
BspANI	GGCC	1 cut(s)	713
BspCNI	CTCAG	6 cut(s)	46, 171, 437, 472, 654, 730
BspFNI	CGCG	2 cut(s)	888, 890
BspLI	GGNNCC	2 cut(s)	363, 731
BspMAI	CTGCAG	2 cut(s)	291, 544
BspQI	GCTCTTC	1 cut(s)	62
BspT107I	GGYRCC	1 cut(s)	729
BspTI	CTTAAG	1 cut(s)	686
BsrBI	CCGCTC	1 cut(s)	658
BsrDI	GCAATG	1 cut(s)	435
BsrI	ACTGG	3 cut(s)	334, 399, 977
BssECI	CCNNGG	1 cut(s)	826
BssMI	GATC	1 cut(s)	154
BssNI	GRCGYC	1 cut(s)	503
BssSI	CACGAG	1 cut(s)	609
Bst2BI	CACGAG	1 cut(s)	609
Bst2UI	CCWGG	1 cut(s)	827
Bst4CI	ACNGT	2 cut(s)	49, 284
Bst6I	CTCTTC	1 cut(s)	62
BstACI	GRCGYC	1 cut(s)	503
BstAFI	CTTAAG	1 cut(s)	686
BstAPI	GCANNNNNTGC	1 cut(s)	377
BstC8I	GCNNGC	2 cut(s)	74, 833
BstDEI	CTNAG	7 cut(s)	54, 158, 424, 459, 641, 703, 738
BstEII	GGTNACC	1 cut(s)	226
BstF5I	GGATG	1 cut(s)	424
BstFNI	CGCG	2 cut(s)	888, 890
BstHHI	GCGC	1 cut(s)	890
BstKTI	GATC	1 cut(s)	157
BstMAI	GTCTC	3 cut(s)	103, 427, 959
BstMBI	GATC	1 cut(s)	154
BstMWI	GCNNNNNNNGC	3 cut(s)	178, 377, 719
BstNI	CCWGG	1 cut(s)	827
BstNSI	RCATGY	1 cut(s)	835
BstPI	GGTNACC	1 cut(s)	226
BstSCI	CCNGG	1 cut(s)	825
BstSFI	CTRYAG	3 cut(s)	287, 355, 540
BstUI	CGCG	2 cut(s)	888, 890
BstV1I	GCAGC	3 cut(s)	108, 364, 552
BstV2I	GAAGAC	1 cut(s)	503
Bsu36I	CCTNAGG	1 cut(s)	641
BsuRI	GGCC	1 cut(s)	713
BtsCI	GGATG	1 cut(s)	424
BtsI	GCAGTG	2 cut(s)	446, 942
BtsIMutI	CAGTG	3 cut(s)	446, 724, 942
Cac8I	GCNNGC	2 cut(s)	74, 833
CaiI	CAGNNNCTG	1 cut(s)	53
CfoI	GCGC	1 cut(s)	890
CseI	GACGC	1 cut(s)	511
CviAII	CATG	8 cut(s)	31, 368, 395, 488, 723, 832, 870, 918
DdeI	CTNAG	7 cut(s)	54, 158, 424, 459, 641, 703, 738
DpnI	GATC	1 cut(s)	156
DpnII	GATC	1 cut(s)	154
DraIII	CACNNNGTG	1 cut(s)	623
DrdI	GACNNNNNNGTC	1 cut(s)	713
DseDI	GACNNNNNNGTC	1 cut(s)	713
EaeI	YGGCCR	1 cut(s)	711
Eam1104I	CTCTTC	1 cut(s)	62
EarI	CTCTTC	1 cut(s)	62
Eco24I	GRGCYC	1 cut(s)	141
Eco57I	CTGAAG	1 cut(s)	206
Eco81I	CCTNAGG	1 cut(s)	641
Eco91I	GGTNACC	1 cut(s)	226
EcoO65I	GGTNACC	1 cut(s)	226
EcoRI	GAATTC	1 cut(s)	34
EcoRII	CCWGG	1 cut(s)	825
EcoT38I	GRGCYC	1 cut(s)	141
FaeI	CATG	8 cut(s)	34, 371, 398, 491, 726, 835, 873, 921
FalI	AAGNNNNNCTT	2 cut(s)	658, 690
FaqI	GGGAC	1 cut(s)	628
FatI	CATG	8 cut(s)	30, 367, 394, 487, 722, 831, 869, 917
FauNDI	CATATG	1 cut(s)	757
Fnu4HI	GCNGC	5 cut(s)	122, 378, 566, 886, 891
FokI	GGATG	1 cut(s)	431
FriOI	GRGCYC	1 cut(s)	141
Fsp4HI	GCNGC	5 cut(s)	122, 378, 566, 886, 891
FspBI	CTAG	3 cut(s)	389, 932, 959
GlaI	GCGC	1 cut(s)	889
GluI	GCNGC	5 cut(s)	122, 378, 566, 886, 891
GsaI	CCCAGC	1 cut(s)	565
GsuI	CTGGAG	1 cut(s)	98
HaeIII	GGCC	1 cut(s)	713
HgaI	GACGC	1 cut(s)	511
HhaI	GCGC	1 cut(s)	890
Hin1I	GRCGYC	1 cut(s)	503
Hin1II	CATG	8 cut(s)	34, 371, 398, 491, 726, 835, 873, 921
Hin6I	GCGC	1 cut(s)	888
HinP1I	GCGC	1 cut(s)	888
HincII	GTYRAC	1 cut(s)	521
HindII	GTYRAC	1 cut(s)	521
HinfI	GANTC	4 cut(s)	56, 111, 293, 472
HphI	GGTGA	1 cut(s)	824
Hpy166II	GTNNAC	2 cut(s)	521, 940
Hpy188I	TCNGA	9 cut(s)	55, 61, 88, 108, 161, 462, 679, 739, 904
Hpy188III	TCNNGA	4 cut(s)	476, 643, 800, 947
Hpy8I	GTNNAC	2 cut(s)	521, 940
Hpy99I	CGWCG	1 cut(s)	505
HpyAV	CCTTC	4 cut(s)	428, 690, 870, 956
HpyCH4III	ACNGT	2 cut(s)	49, 284
HpyCH4IV	ACGT	2 cut(s)	595, 865
HpyF10VI	GCNNNNNNNGC	3 cut(s)	178, 377, 719
HpyF3I	CTNAG	7 cut(s)	54, 158, 424, 459, 641, 703, 738
HpySE526I	ACGT	2 cut(s)	595, 865
Hsp92I	GRCGYC	1 cut(s)	503
Hsp92II	CATG	8 cut(s)	34, 371, 398, 491, 726, 835, 873, 921
HspAI	GCGC	1 cut(s)	888
Kzo9I	GATC	1 cut(s)	154
LguI	GCTCTTC	1 cut(s)	62
LmnI	GCTCC	1 cut(s)	679
Lsp1109I	GCAGC	3 cut(s)	108, 364, 552
MaeI	CTAG	3 cut(s)	389, 932, 959
MaeII	ACGT	2 cut(s)	595, 865
MaeIII	GTNAC	6 cut(s)	43, 188, 199, 226, 278, 465
MalI	GATC	1 cut(s)	156
MbiI	CCGCTC	1 cut(s)	658
MboI	GATC	1 cut(s)	154
MboII	GAAGA	4 cut(s)	79, 212, 508, 628
MhlI	GDGCHC	1 cut(s)	141
MluCI	AATT	4 cut(s)	34, 269, 451, 514
MlyI	GAGTC	3 cut(s)	65, 105, 481
MroXI	GAANNNNTTC	1 cut(s)	554
MseI	TTAA	4 cut(s)	266, 308, 687, 780
MslI	CAYNNNNRTG	2 cut(s)	727, 868
MspA1I	CMGCKG	2 cut(s)	233, 565
MspCI	CTTAAG	1 cut(s)	686
MspR9I	CCNGG	1 cut(s)	827
MvaI	CCWGG	1 cut(s)	827
MvnI	CGCG	2 cut(s)	888, 890
MwoI	GCNNNNNNNGC	3 cut(s)	178, 377, 719
NdeI	CATATG	1 cut(s)	757
NdeII	GATC	1 cut(s)	154
NlaIII	CATG	8 cut(s)	34, 371, 398, 491, 726, 835, 873, 921
NlaIV	GGNNCC	2 cut(s)	363, 731
NmuCI	GTSAC	2 cut(s)	43, 278
NspI	RCATGY	1 cut(s)	835
PaeI	GCATGC	1 cut(s)	835
PciSI	GCTCTTC	1 cut(s)	62
PdmI	GAANNNNTTC	1 cut(s)	554
PfeI	GAWTC	1 cut(s)	293
PkrI	GCNGC	5 cut(s)	123, 379, 567, 887, 892
PleI	GAGTC	3 cut(s)	64, 105, 480
PpsI	GAGTC	3 cut(s)	64, 105, 480
PsiI	TTATAA	1 cut(s)	408
Psp6I	CCWGG	1 cut(s)	825
PspEI	GGTNACC	1 cut(s)	226
PspFI	CCCAGC	1 cut(s)	561
PspGI	CCWGG	1 cut(s)	825
PspN4I	GGNNCC	2 cut(s)	363, 731
PstI	CTGCAG	2 cut(s)	291, 544
PstNI	CAGNNNCTG	1 cut(s)	53
PvuII	CAGCTG	1 cut(s)	565
RseI	CAYNNNNRTG	2 cut(s)	727, 868
SapI	GCTCTTC	1 cut(s)	62
SaqAI	TTAA	4 cut(s)	266, 308, 687, 780
SatI	GCNGC	5 cut(s)	122, 378, 566, 886, 891
Sau3AI	GATC	1 cut(s)	154
SchI	GAGTC	3 cut(s)	65, 105, 481
ScrFI	CCNGG	1 cut(s)	827
SduI	GDGCHC	1 cut(s)	141
SfcI	CTRYAG	3 cut(s)	287, 355, 540
SmiMI	CAYNNNNRTG	2 cut(s)	727, 868
SmlI	CTYRAG	2 cut(s)	686, 798
SmoI	CTYRAG	2 cut(s)	686, 798
SphI	GCATGC	1 cut(s)	835
Sse9I	AATT	4 cut(s)	34, 269, 451, 514
SsiI	CCGC	4 cut(s)	231, 658, 886, 890
SspI	AATATT	1 cut(s)	412
SspMI	CTAG	3 cut(s)	389, 932, 959
StyD4I	CCNGG	1 cut(s)	825
TaaI	ACNGT	2 cut(s)	49, 284
TaiI	ACGT	2 cut(s)	598, 868
TaqI	TCGA	1 cut(s)	694
TasI	AATT	4 cut(s)	34, 269, 451, 514
TauI	GCSGC	2 cut(s)	888, 893
TfiI	GAWTC	1 cut(s)	293
Tru1I	TTAA	4 cut(s)	266, 308, 687, 780
Tru9I	TTAA	4 cut(s)	266, 308, 687, 780
TscAI	CASTG	3 cut(s)	446, 724, 942
TseFI	GTSAC	2 cut(s)	43, 278
TseI	GCWGC	3 cut(s)	121, 377, 565
Tsp45I	GTSAC	2 cut(s)	43, 278
TspDTI	ATGAA	7 cut(s)	47, 120, 354, 444, 602, 798, 858
TspRI	CASTG	3 cut(s)	446, 724, 942
Vha464I	CTTAAG	1 cut(s)	686
XapI	RAATTY	1 cut(s)	34
XceI	RCATGY	1 cut(s)	835
XmnI	GAANNNNTTC	1 cut(s)	554
XspI	CTAG	3 cut(s)	389, 932, 959

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