Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr04

Orthogroup ID

OG0002901

Physical Location & Seq

Genomic Coordinates Reverse (-)

23992749 .. 23995707

Gene Structure 2959 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD04G1151400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGTTTAGGGTTTTCTATGGGAGGGATGAGAAAATAGTAAAAACGATCAGGAAAAGCAAAATGCGTAAGTCTTTCAAGGATTCTATCAAGGCGCTCGAAGCTGATATCCAGTTCGCCAACACTCTGGCTTCTGATTATCCGAGGGAATACGACGGGGCCTGCCTCCAAATGAGATTATCCTATAGGCCGGCCGCGCAATTCTTCTGGTTTCTTATTCGGTGGACTGATTGTCACCTTGCTGGAGCCTTAGGATTGCTTAGAATTCTAATATACAAGGCGTATGAGGATGGGAAGACCACCATGTCTATTCATGAAAGAGAAGCTAGTCTAAAAGAGTTCTATGGCGTGATATTTCCCTCGTTATTGCAACTCCAGAGAGGAATGACTGATGTAGAAGATAGGAAACAGAAAGAAATCTTATCCGCCAAGTACAAGAGGAAAAATGAGACGGACAAAGGAAAGCTCACCGAAATTGATTTAGAGCGAGAAGAAGAATGTGGTATTTGCATGGAGATGAACAGCAAGGTTGTATTGCCCAATTGCAGTCATTCTATGTGTATGAAGTGCTATCGAAACTGGCGTACACGGTCTCAATCATGCCCCTTCTGCCGGGACAGTCTCAAAAGAGTCAACTCAAGTGATCTTTGGATCTACACCAGCAACAGCGAGATTGTTGATCCGTCTGCAATCTCTAGGGAGAATTCGAAGAGACTTTTTATGTACATTGATAAGCTTCCTCTCATCGCCCCAAATCCTGCATTTGTTTCGTATGATCTTCGTCGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009737 GO:0009787 GO:0009789 GO:0009966 GO:0009967 GO:0009987 GO:0010033 GO:0010646 GO:0010647 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0023051 GO:0023056 GO:0030163 GO:0032446 GO:0033993 GO:0036211 GO:0042221 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0048518 GO:0048522 GO:0048583 GO:0048584 GO:0050789 GO:0050794 GO:0050896 GO:0051603 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0097305 GO:0140096 GO:1901419 GO:1901421 GO:1901564 GO:1901565 GO:1901575 GO:1901700 GO:1905957 GO:1905959

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3

Protein Analysis

262

Amino Acids

30.64

Weight (kDa)

9.19

Isoelectric Point (pI)

54.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	163 - 209	3.9e-10	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	165 - 204	1.4e-08	Ring finger domain
zf-C3HC4_2	PF13923	165 - 203	4.5e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_5	PF14634	165 - 204	7.8e-06	zinc-RING finger domain
zf-C3HC4	PF00097	166 - 203	2.4e-06	Zinc finger, C3HC4 type (RING finger)

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: OG0002901)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01520 AT5G01520
fragaria_vesca	FvH4_3g04920 FvH4_6g11510 FvH4_6g11510
malus_domestica	MD04G1151400.v1.1 MD05G1314700.v1.1 MD10G1296100.v1.1 MD12G1165500.v1.1
prunus_persica	Prupe.4G044500_v2.0.a1 Prupe.6G276500_v2.0.a1 Prupe.6G276500_v2.0.a1 Prupe.6G276500_v2.0.a1
pyrus_communis	pycom04g13730 pycom05g29250 pycom10g24860 pycom12g15810
rosa_chinensis	RchiOBHm_Chr3g0463221 RchiOBHm_Chr5g0008081
rosa_laevigata	RLG00000024801 RLG00000031534
rosa_multiflora	Rmu_sc0001626.1_g000003 Rmu_sc0004643.1_g000001 Rmu_sc0017465.1_g000004
rosa_roxburghii	Rroxscaffold_1G00068400 Rroxscaffold_6G00416790
rosa_rugosa	Rorug03G0062500 Rorug03G0062500 Rorug04G0433300
rosa_samantha	Rh3AG120700 Rh3BG125100 Rh3CG127200 Rh3DG126300 Rh5BG058100 Rh5CG068200 Rh5DG057300
rosa_wichuraiana	Rw3G010250 Rw5G005930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	301
AccII	CGCG	1 cut(s)	194
AciI	CCGC	2 cut(s)	192, 423
AclWI	GGATC	2 cut(s)	656, 671
AcoI	YGGCCR	1 cut(s)	189
AcsI	RAATTY	2 cut(s)	261, 700
AfaI	GTAC	3 cut(s)	431, 583, 722
AfiI	CCNNNNNNNGG	1 cut(s)	609
AgsI	TTSAA	1 cut(s)	76
AhdI	GACNNNNNGTC	1 cut(s)	228
AluBI	AGCT	4 cut(s)	101, 323, 463, 733
AluI	AGCT	4 cut(s)	101, 323, 463, 733
Alw26I	GTCTC	4 cut(s)	440, 594, 623, 703
AlwI	GGATC	2 cut(s)	656, 671
AoxI	GGCC	3 cut(s)	156, 185, 189
ApoI	RAATTY	2 cut(s)	261, 700
AspLEI	GCGC	2 cut(s)	94, 196
AspS9I	GGNCC	1 cut(s)	156
AsuC2I	CCSGG	1 cut(s)	611
AsuHPI	GGTGA	2 cut(s)	224, 457
AsuII	TTCGAA	1 cut(s)	704
AxyI	CCTNAGG	1 cut(s)	247
BbsI	GAAGAC	1 cut(s)	299
BccI	CCATC	1 cut(s)	281
BcgI	CGANNNNNNTGC	2 cut(s)	747, 781
BcnI	CCSGG	1 cut(s)	611
BcoDI	GTCTC	4 cut(s)	440, 594, 623, 703
BfaI	CTAG	2 cut(s)	324, 693
BfmI	CTRYAG	1 cut(s)	181
BfoI	RGCGCY	1 cut(s)	95
BisI	GCNGC	1 cut(s)	192
BlsI	GCNGC	1 cut(s)	193
Bme1390I	CCNGG	1 cut(s)	611
BmeRI	GACNNNNNGTC	1 cut(s)	228
BmgT120I	GGNCC	1 cut(s)	156
BmiI	GGNNCC	2 cut(s)	157, 244
BmrFI	CCNGG	1 cut(s)	611
BpiI	GAAGAC	1 cut(s)	299
BpmI	CTGGAG	2 cut(s)	261, 356
Bpu14I	TTCGAA	1 cut(s)	704
BpuEI	CTTGAG	1 cut(s)	619
BpuMI	CCSGG	1 cut(s)	611
BsaI	GGTCTC	1 cut(s)	594
BsaJI	CCNNGG	1 cut(s)	140
Bsc4I	CCNNNNNNNGG	1 cut(s)	609
Bse118I	RCCGGY	1 cut(s)	187
Bse1I	ACTGG	2 cut(s)	109, 581
Bse21I	CCTNAGG	1 cut(s)	247
BseDI	CCNNGG	1 cut(s)	140
BseGI	GGATG	2 cut(s)	31, 292
BseLI	CCNNNNNNNGG	1 cut(s)	609
BseNI	ACTGG	2 cut(s)	109, 581
BseX3I	CGGCCG	1 cut(s)	189
Bsh1236I	CGCG	1 cut(s)	194
Bsh1285I	CGRYCG	1 cut(s)	192
BshFI	GGCC	3 cut(s)	158, 187, 191
BsiEI	CGRYCG	1 cut(s)	192
BsiSI	CCGG	2 cut(s)	188, 610
BslFI	GGGAC	1 cut(s)	626
BslI	CCNNNNNNNGG	1 cut(s)	609
BsmAI	GTCTC	4 cut(s)	440, 594, 623, 703
BsmBI	CGTCTC	1 cut(s)	440
BsmFI	GGGAC	1 cut(s)	626
BsnI	GGCC	3 cut(s)	158, 187, 191
Bso31I	GGTCTC	1 cut(s)	594
Bsp119I	TTCGAA	1 cut(s)	704
Bsp1407I	TGTACA	1 cut(s)	720
Bsp143I	GATC	5 cut(s)	45, 640, 648, 676, 772
BspACI	CCGC	2 cut(s)	192, 423
BspANI	GGCC	3 cut(s)	158, 187, 191
BspFNI	CGCG	1 cut(s)	194
BspHI	TCATGA	1 cut(s)	310
BspLI	GGNNCC	2 cut(s)	157, 244
BspPI	GGATC	2 cut(s)	656, 671
BspT104I	TTCGAA	1 cut(s)	704
BspTNI	GGTCTC	1 cut(s)	594
BsrFI	RCCGGY	1 cut(s)	187
BsrGI	TGTACA	1 cut(s)	720
BsrI	ACTGG	2 cut(s)	109, 581
BssAI	RCCGGY	1 cut(s)	187
BssECI	CCNNGG	1 cut(s)	140
BssMI	GATC	5 cut(s)	45, 640, 648, 676, 772
Bst4CI	ACNGT	2 cut(s)	588, 617
Bst6I	CTCTTC	1 cut(s)	701
BstAUI	TGTACA	1 cut(s)	720
BstBI	TTCGAA	1 cut(s)	704
BstC8I	GCNNGC	2 cut(s)	160, 189
BstDEI	CTNAG	2 cut(s)	247, 257
BstF5I	GGATG	2 cut(s)	31, 292
BstFNI	CGCG	1 cut(s)	194
BstH2I	RGCGCY	1 cut(s)	95
BstHHI	GCGC	2 cut(s)	94, 196
BstKTI	GATC	5 cut(s)	48, 643, 651, 679, 775
BstMAI	GTCTC	4 cut(s)	440, 594, 623, 703
BstMBI	GATC	5 cut(s)	45, 640, 648, 676, 772
BstMCI	CGRYCG	1 cut(s)	192
BstMWI	GCNNNNNNNGC	3 cut(s)	98, 193, 606
BstSCI	CCNGG	1 cut(s)	609
BstSFI	CTRYAG	1 cut(s)	181
BstUI	CGCG	1 cut(s)	194
BstV2I	GAAGAC	1 cut(s)	299
BstX2I	RGATCY	1 cut(s)	648
BstXI	CCANNNNNNTGG	1 cut(s)	124
BstYI	RGATCY	1 cut(s)	648
BstZI	CGGCCG	1 cut(s)	189
Bsu36I	CCTNAGG	1 cut(s)	247
BsuRI	GGCC	3 cut(s)	158, 187, 191
BtgZI	GCGATG	1 cut(s)	727
BtsCI	GGATG	2 cut(s)	31, 292
Cac8I	GCNNGC	2 cut(s)	160, 189
CciI	TCATGA	1 cut(s)	310
CfoI	GCGC	2 cut(s)	94, 196
Cfr10I	RCCGGY	1 cut(s)	187
Cfr13I	GGNCC	1 cut(s)	156
Csp6I	GTAC	3 cut(s)	430, 582, 721
CviAII	CATG	4 cut(s)	301, 311, 508, 597
CviJI	RGCY	9 cut(s)	101, 128, 158, 187, 191, 245, 323, 463, 733
CviKI_1	RGCY	9 cut(s)	101, 128, 158, 187, 191, 245, 323, 463, 733
CviQI	GTAC	3 cut(s)	430, 582, 721
DdeI	CTNAG	2 cut(s)	247, 257
DpnI	GATC	5 cut(s)	47, 642, 650, 678, 774
DpnII	GATC	5 cut(s)	45, 640, 648, 676, 772
DrdI	GACNNNNNNGTC	1 cut(s)	301
DriI	GACNNNNNGTC	1 cut(s)	228
DseDI	GACNNNNNNGTC	1 cut(s)	301
EaeI	YGGCCR	1 cut(s)	189
EagI	CGGCCG	1 cut(s)	189
Eam1104I	CTCTTC	1 cut(s)	701
Eam1105I	GACNNNNNGTC	1 cut(s)	228
EarI	CTCTTC	1 cut(s)	701
EciI	GGCGGA	1 cut(s)	412
EclXI	CGGCCG	1 cut(s)	189
Eco31I	GGTCTC	1 cut(s)	594
Eco32I	GATATC	1 cut(s)	106
Eco52I	CGGCCG	1 cut(s)	189
Eco81I	CCTNAGG	1 cut(s)	247
EcoO109I	RGGNCCY	1 cut(s)	156
EcoRI	GAATTC	2 cut(s)	261, 700
EcoRV	GATATC	1 cut(s)	106
Esp3I	CGTCTC	1 cut(s)	440
FaeI	CATG	4 cut(s)	304, 314, 511, 600
FaqI	GGGAC	1 cut(s)	626
FatI	CATG	4 cut(s)	300, 310, 507, 596
Fnu4HI	GCNGC	1 cut(s)	192
FokI	GGATG	2 cut(s)	38, 299
FseI	GGCCGGCC	1 cut(s)	191
Fsp4HI	GCNGC	1 cut(s)	192
FspBI	CTAG	2 cut(s)	324, 693
GlaI	GCGC	2 cut(s)	93, 195
GluI	GCNGC	1 cut(s)	192
GsuI	CTGGAG	2 cut(s)	261, 356
HaeII	RGCGCY	1 cut(s)	95
HaeIII	GGCC	3 cut(s)	158, 187, 191
HapII	CCGG	2 cut(s)	188, 610
HhaI	GCGC	2 cut(s)	94, 196
Hin1II	CATG	4 cut(s)	304, 314, 511, 600
Hin6I	GCGC	2 cut(s)	92, 194
HinP1I	GCGC	2 cut(s)	92, 194
HincII	GTYRAC	1 cut(s)	631
HindII	GTYRAC	1 cut(s)	631
HindIII	AAGCTT	1 cut(s)	731
HinfI	GANTC	2 cut(s)	80, 627
HpaII	CCGG	2 cut(s)	188, 610
HphI	GGTGA	2 cut(s)	224, 457
Hpy166II	GTNNAC	3 cut(s)	222, 584, 631
Hpy188I	TCNGA	2 cut(s)	133, 141
Hpy188III	TCNNGA	3 cut(s)	49, 311, 373
Hpy8I	GTNNAC	3 cut(s)	222, 584, 631
Hpy99I	CGWCG	2 cut(s)	155, 783
HpyAV	CCTTC	1 cut(s)	613
HpyCH4III	ACNGT	2 cut(s)	588, 617
HpyCH4V	TGCA	5 cut(s)	367, 507, 543, 686, 758
HpyF10VI	GCNNNNNNNGC	3 cut(s)	98, 193, 606
HpyF3I	CTNAG	2 cut(s)	247, 257
Hsp92II	CATG	4 cut(s)	304, 314, 511, 600
HspAI	GCGC	2 cut(s)	92, 194
KroI	GCCGGC	1 cut(s)	187
KroNI	GCCGGC	1 cut(s)	189
Kzo9I	GATC	5 cut(s)	45, 640, 648, 676, 772
LmnI	GCTCC	1 cut(s)	242
MaeI	CTAG	2 cut(s)	324, 693
MaeIII	GTNAC	1 cut(s)	230
MalI	GATC	5 cut(s)	47, 642, 650, 678, 774
MboI	GATC	5 cut(s)	45, 640, 648, 676, 772
MboII	GAAGA	7 cut(s)	193, 304, 407, 500, 503, 718, 767
MfeI	CAATTG	1 cut(s)	538
MflI	RGATCY	1 cut(s)	648
MluCI	AATT	5 cut(s)	197, 261, 471, 538, 700
MlyI	GAGTC	1 cut(s)	636
MnlI	CCTC	8 cut(s)	15, 135, 173, 277, 367, 371, 429, 747
MroNI	GCCGGC	1 cut(s)	187
MslI	CAYNNNNRTG	1 cut(s)	512
MspI	CCGG	2 cut(s)	188, 610
MspR9I	CCNGG	1 cut(s)	611
MunI	CAATTG	1 cut(s)	538
MvnI	CGCG	1 cut(s)	194
MwoI	GCNNNNNNNGC	3 cut(s)	98, 193, 606
NaeI	GCCGGC	1 cut(s)	189
NciI	CCSGG	1 cut(s)	611
NdeII	GATC	5 cut(s)	45, 640, 648, 676, 772
NgoMIV	GCCGGC	1 cut(s)	187
NlaIII	CATG	4 cut(s)	304, 314, 511, 600
NlaIV	GGNNCC	2 cut(s)	157, 244
NmuCI	GTSAC	1 cut(s)	230
NspV	TTCGAA	1 cut(s)	704
PagI	TCATGA	1 cut(s)	310
PcsI	WCGNNNNNNNCGW	1 cut(s)	577
PdiI	GCCGGC	1 cut(s)	189
PfeI	GAWTC	1 cut(s)	80
PkrI	GCNGC	1 cut(s)	193
PleI	GAGTC	1 cut(s)	635
PpsI	GAGTC	1 cut(s)	635
PspN4I	GGNNCC	2 cut(s)	157, 244
PspPI	GGNCC	1 cut(s)	156
PsuI	RGATCY	1 cut(s)	648
RigI	GGCCGGCC	1 cut(s)	191
RsaI	GTAC	3 cut(s)	431, 583, 722
RsaNI	GTAC	3 cut(s)	430, 582, 721
RseI	CAYNNNNRTG	1 cut(s)	512
SatI	GCNGC	1 cut(s)	192
Sau3AI	GATC	5 cut(s)	45, 640, 648, 676, 772
Sau96I	GGNCC	1 cut(s)	156
SchI	GAGTC	1 cut(s)	636
ScrFI	CCNGG	1 cut(s)	611
SetI	ASST	6 cut(s)	103, 237, 325, 465, 528, 735
SfcI	CTRYAG	1 cut(s)	181
SfuI	TTCGAA	1 cut(s)	704
SmiMI	CAYNNNNRTG	1 cut(s)	512
SmlI	CTYRAG	1 cut(s)	634
SmoI	CTYRAG	1 cut(s)	634
Sse9I	AATT	5 cut(s)	197, 261, 471, 538, 700
SsiI	CCGC	2 cut(s)	192, 423
SspMI	CTAG	2 cut(s)	324, 693
StyD4I	CCNGG	1 cut(s)	609
TaaI	ACNGT	2 cut(s)	588, 617
TaqI	TCGA	3 cut(s)	96, 571, 704
TasI	AATT	5 cut(s)	197, 261, 471, 538, 700
TatI	WGTACW	2 cut(s)	429, 720
TauI	GCSGC	1 cut(s)	194
TfiI	GAWTC	1 cut(s)	80
TseFI	GTSAC	1 cut(s)	230
Tsp45I	GTSAC	1 cut(s)	230
TspDTI	ATGAA	4 cut(s)	299, 327, 530, 575
TspGWI	ACGGA	2 cut(s)	464, 669
XapI	RAATTY	2 cut(s)	261, 700
XspI	CTAG	2 cut(s)	324, 693

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