Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr04

Orthogroup ID

OG0015816

Physical Location & Seq

Genomic Coordinates Forward (+)

27990062 .. 27991893

Gene Structure 1832 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD04G1189600.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 930 bp

ATGCATCTAAGTGAAGGGCTCCATATGTTGAGCATGATATTTGCTAGGGTTCGTGTGATCCTAATTTGCTTTTTCTCTTTTTGTTTCTTCTTTCCTCCCACACACGGCAGACTTCAAAGTCCTAACACTAGATATGATAAGGATTTGAACCCGATATCTCAGATTTCATTGCCACCTTCTCCTTCACCTCAAGCTGCTAGCCCAAGTTACAATGCTATTTCTGTTCATGGTAATACTGTTTTCAATGTGAGATCTTTTGGTGCCGTTGGAGACGGTGTTGCTGATGACACACAAGCATTCAAAATGGCTTGGGATAGTGCTTGTCAAACTGAAGATTCAGAAGTTCTTGTTCCTAAAGGTCATTCCTTTATGATACAGTCCACAATCTTCACAGGGCCATGTAGTTCTGGCCTCAAATTTCAGATTGATGGAACATTAGTGCCACCAGATGGACCTGATTCATGGCCAAAAAAGAACAGCAAGAGACAGTGGCTGGTTTTCTACAGAATCAATGGAATGTCAATGCAAGGGGGTGGTGTAATAGATGGGAGAGGAGAGAAATGGTGGGATCTTCCTTGTAAACCCCACAAAGGAATTAATGGAACAACGCAGCCTGGCCCTTGTGATAGCCCAGTTGCCATAAGATTTTTCATGAGCTCCAATTTGCGAGTGCAAGGACTCAAAGTTAAGAACAGCCCCCAGTTTCATTTTCGGTTCGATAACTGTCAAAACGTCCACATAGAATCACTTACCATAAAAGCACCTGCTTTGAGTCCCAACACAGATGGAATTCACATAGAGAACACAAACAATGTGAAACTGTACAATTCACTAATCTCCAATGGTAATTACACAAAAGCAGCTTCCAATTCAACATGTCTTTCTCCACTCTCCAATCTCTCAAAAAATCAGCCTGACCTTGGGTTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004553 GO:0004650 GO:0005575 GO:0005618 GO:0005623 GO:0008150 GO:0009664 GO:0009825 GO:0009827 GO:0009831 GO:0009987 GO:0016043 GO:0016049 GO:0016787 GO:0016798 GO:0030312 GO:0040007 GO:0042545 GO:0042547 GO:0044464 GO:0045229 GO:0071554 GO:0071555 GO:0071669 GO:0071840 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28 Pectate_lyase_3

Protein Analysis

310

Amino Acids

33.99

Weight (kDa)

8.75

Isoelectric Point (pI)

52.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	81 - 129	8.6e-07	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	110 - 283	3.3e-34	Glycosyl hydrolases family 28

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: OG0015816)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G56710
fragaria_vesca	FvH4_6g08130
malus_domestica	MD04G1189600.v1.1
prunus_persica	Prupe.6G307400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0457981
rosa_laevigata	RLG00000025181
rosa_multiflora	Rmu_sc0000384.1_g000005
rosa_roxburghii	Rroxscaffold_6G00421410
rosa_rugosa	Rorug03G0024000
rosa_samantha	Rh3AG084600 Rh3BG087300 Rh3CG087800 Rh3DG088100
rosa_wichuraiana	Rw0G012380 Rw3G007200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	772
AasI	GACNNNNNNGTC	1 cut(s)	117
Acc36I	ACCTGC	1 cut(s)	772
AccB1I	GGYRCC	1 cut(s)	260
AccB7I	CCANNNNNTGG	1 cut(s)	449
AclWI	GGATC	2 cut(s)	52, 576
AcoI	YGGCCR	1 cut(s)	464
AcsI	RAATTY	2 cut(s)	416, 789
AcuI	CTGAAG	1 cut(s)	351
AfaI	GTAC	1 cut(s)	824
AfiI	CCNNNNNNNGG	4 cut(s)	104, 449, 590, 920
AflIII	ACRYGT	1 cut(s)	875
AgsI	TTSAA	5 cut(s)	116, 148, 244, 301, 873
AjnI	CCWGG	1 cut(s)	613
AluBI	AGCT	3 cut(s)	194, 657, 863
AluI	AGCT	3 cut(s)	194, 657, 863
Alw21I	GWGCWC	1 cut(s)	659
Alw26I	GTCTC	2 cut(s)	264, 478
AlwI	GGATC	2 cut(s)	52, 576
AlwNI	CAGNNNCTG	1 cut(s)	493
AoxI	GGCC	4 cut(s)	395, 409, 464, 616
ApeKI	GCWGC	3 cut(s)	194, 610, 860
ApoI	RAATTY	2 cut(s)	416, 789
AseI	ATTAAT	1 cut(s)	597
AspS9I	GGNCC	3 cut(s)	395, 452, 617
AsuHPI	GGTGA	1 cut(s)	177
AsuNHI	GCTAGC	1 cut(s)	197
AvaII	GGWCC	1 cut(s)	452
BalI	TGGCCA	1 cut(s)	466
BanI	GGYRCC	1 cut(s)	260
BanII	GRGCYC	2 cut(s)	21, 659
Bbv12I	GWGCWC	1 cut(s)	659
BbvI	GCAGC	3 cut(s)	181, 622, 872
BccI	CCATC	4 cut(s)	422, 443, 539, 779
BceAI	ACGGC	2 cut(s)	121, 248
BciT130I	CCWGG	1 cut(s)	615
BcoDI	GTCTC	2 cut(s)	264, 478
BfaI	CTAG	3 cut(s)	45, 129, 198
BfmI	CTRYAG	1 cut(s)	502
BfuAI	ACCTGC	1 cut(s)	772
BglII	AGATCT	1 cut(s)	251
BisI	GCNGC	3 cut(s)	195, 611, 861
BlsI	GCNGC	3 cut(s)	196, 612, 862
Bme1390I	CCNGG	1 cut(s)	615
Bme18I	GGWCC	1 cut(s)	452
BmgT120I	GGNCC	3 cut(s)	395, 452, 617
BmiI	GGNNCC	2 cut(s)	20, 262
BmrFI	CCNGG	1 cut(s)	615
BmrI	ACTGGG	2 cut(s)	626, 694
BmsI	GCATC	1 cut(s)	13
BmtI	GCTAGC	1 cut(s)	201
BmuI	ACTGGG	2 cut(s)	626, 694
BpuEI	CTTGAG	1 cut(s)	174
BsaJI	CCNNGG	1 cut(s)	919
BsaXI	ACNNNNNCTCC	2 cut(s)	261, 291
Bsc4I	CCNNNNNNNGG	4 cut(s)	104, 449, 590, 920
Bse1I	ACTGG	2 cut(s)	632, 700
Bse3DI	GCAATG	1 cut(s)	167
BseBI	CCWGG	1 cut(s)	615
BseDI	CCNNGG	1 cut(s)	919
BseLI	CCNNNNNNNGG	4 cut(s)	104, 449, 590, 920
BseMI	GCAATG	1 cut(s)	167
BseMII	CTCAG	1 cut(s)	173
BseNI	ACTGG	2 cut(s)	632, 700
BseRI	GAGGAG	1 cut(s)	567
BseXI	GCAGC	3 cut(s)	181, 622, 872
BshFI	GGCC	4 cut(s)	397, 411, 466, 618
BshNI	GGYRCC	1 cut(s)	260
BsiHKAI	GWGCWC	1 cut(s)	659
BslFI	GGGAC	1 cut(s)	759
BslI	CCNNNNNNNGG	4 cut(s)	104, 449, 590, 920
BsmAI	GTCTC	2 cut(s)	264, 478
BsmBI	CGTCTC	1 cut(s)	264
BsmFI	GGGAC	1 cut(s)	759
BsmI	GAATGC	1 cut(s)	296
BsnI	GGCC	4 cut(s)	397, 411, 466, 618
Bsp1286I	GDGCHC	2 cut(s)	21, 659
Bsp1407I	TGTACA	1 cut(s)	822
Bsp143I	GATC	3 cut(s)	57, 251, 568
BspANI	GGCC	4 cut(s)	397, 411, 466, 618
BspCNI	CTCAG	1 cut(s)	172
BspHI	TCATGA	1 cut(s)	651
BspLI	GGNNCC	2 cut(s)	20, 262
BspMI	ACCTGC	1 cut(s)	772
BspOI	GCTAGC	1 cut(s)	201
BspPI	GGATC	2 cut(s)	52, 576
BspT107I	GGYRCC	1 cut(s)	260
BsrDI	GCAATG	1 cut(s)	167
BsrGI	TGTACA	1 cut(s)	822
BsrI	ACTGG	2 cut(s)	632, 700
BssECI	CCNNGG	1 cut(s)	919
BssMI	GATC	3 cut(s)	57, 251, 568
BssT1I	CCWWGG	1 cut(s)	919
Bst2UI	CCWGG	1 cut(s)	615
Bst4CI	ACNGT	6 cut(s)	238, 275, 378, 489, 725, 822
BstAUI	TGTACA	1 cut(s)	822
BstC8I	GCNNGC	1 cut(s)	199
BstDEI	CTNAG	2 cut(s)	8, 159
BstKTI	GATC	3 cut(s)	60, 254, 571
BstMAI	GTCTC	2 cut(s)	264, 478
BstMBI	GATC	3 cut(s)	57, 251, 568
BstNI	CCWGG	1 cut(s)	615
BstNSI	RCATGY	1 cut(s)	879
BstSCI	CCNGG	1 cut(s)	613
BstSFI	CTRYAG	1 cut(s)	502
BstV1I	GCAGC	3 cut(s)	181, 622, 872
BstX2I	RGATCY	2 cut(s)	251, 568
BstYI	RGATCY	2 cut(s)	251, 568
BsuRI	GGCC	4 cut(s)	397, 411, 466, 618
BtsIMutI	CAGTG	1 cut(s)	494
BveI	ACCTGC	1 cut(s)	772
Cac8I	GCNNGC	1 cut(s)	199
CaiI	CAGNNNCTG	1 cut(s)	493
CciI	TCATGA	1 cut(s)	651
Cfr13I	GGNCC	3 cut(s)	395, 452, 617
Csp6I	GTAC	1 cut(s)	823
CviAII	CATG	6 cut(s)	34, 227, 399, 462, 652, 876
CviQI	GTAC	1 cut(s)	823
DdeI	CTNAG	2 cut(s)	8, 159
DpnI	GATC	3 cut(s)	59, 253, 570
DpnII	GATC	3 cut(s)	57, 251, 568
DrdI	GACNNNNNNGTC	1 cut(s)	117
DseDI	GACNNNNNNGTC	1 cut(s)	117
EaeI	YGGCCR	1 cut(s)	464
Ecl136II	GAGCTC	1 cut(s)	657
Eco130I	CCWWGG	1 cut(s)	919
Eco24I	GRGCYC	2 cut(s)	21, 659
Eco32I	GATATC	1 cut(s)	156
Eco47I	GGWCC	1 cut(s)	452
Eco53kI	GAGCTC	1 cut(s)	657
Eco57I	CTGAAG	1 cut(s)	351
EcoICRI	GAGCTC	1 cut(s)	657
EcoRI	GAATTC	1 cut(s)	789
EcoRII	CCWGG	1 cut(s)	613
EcoRV	GATATC	1 cut(s)	156
EcoT14I	CCWWGG	1 cut(s)	919
EcoT22I	ATGCAT	1 cut(s)	6
EcoT38I	GRGCYC	2 cut(s)	21, 659
ErhI	CCWWGG	1 cut(s)	919
Esp3I	CGTCTC	1 cut(s)	264
FaeI	CATG	6 cut(s)	37, 230, 402, 465, 655, 879
FaqI	GGGAC	1 cut(s)	759
FatI	CATG	6 cut(s)	33, 226, 398, 461, 651, 875
FauNDI	CATATG	1 cut(s)	24
Fnu4HI	GCNGC	3 cut(s)	195, 611, 861
FriOI	GRGCYC	2 cut(s)	21, 659
Fsp4HI	GCNGC	3 cut(s)	195, 611, 861
FspBI	CTAG	3 cut(s)	45, 129, 198
GluI	GCNGC	3 cut(s)	195, 611, 861
HaeIII	GGCC	4 cut(s)	397, 411, 466, 618
Hin1II	CATG	6 cut(s)	37, 230, 402, 465, 655, 879
HinfI	GANTC	6 cut(s)	335, 458, 507, 678, 743, 772
HphI	GGTGA	1 cut(s)	177
Hpy166II	GTNNAC	3 cut(s)	381, 581, 736
Hpy188I	TCNGA	3 cut(s)	162, 340, 423
Hpy188III	TCNNGA	1 cut(s)	652
Hpy8I	GTNNAC	3 cut(s)	381, 581, 736
HpyAV	CCTTC	3 cut(s)	8, 186, 192
HpyCH4III	ACNGT	6 cut(s)	238, 275, 378, 489, 725, 822
HpyCH4IV	ACGT	1 cut(s)	732
HpyCH4V	TGCA	3 cut(s)	4, 526, 673
HpyF3I	CTNAG	2 cut(s)	8, 159
HpySE526I	ACGT	1 cut(s)	732
Hsp92II	CATG	6 cut(s)	37, 230, 402, 465, 655, 879
Kzo9I	GATC	3 cut(s)	57, 251, 568
LmnI	GCTCC	2 cut(s)	24, 662
Lsp1109I	GCAGC	3 cut(s)	181, 622, 872
LweI	GCATC	1 cut(s)	13
MaeI	CTAG	3 cut(s)	45, 129, 198
MaeII	ACGT	1 cut(s)	732
MaeIII	GTNAC	1 cut(s)	206
MalI	GATC	3 cut(s)	59, 253, 570
MboI	GATC	3 cut(s)	57, 251, 568
MboII	GAAGA	4 cut(s)	79, 344, 379, 563
MflI	RGATCY	2 cut(s)	251, 568
MhlI	GDGCHC	2 cut(s)	21, 659
MlsI	TGGCCA	1 cut(s)	466
MluCI	AATT	8 cut(s)	63, 416, 594, 661, 789, 826, 847, 868
MluNI	TGGCCA	1 cut(s)	466
MlyI	GAGTC	2 cut(s)	672, 781
MmeI	TCCRAC	1 cut(s)	247
MnlI	CCTC	4 cut(s)	105, 198, 422, 545
Mox20I	TGGCCA	1 cut(s)	466
Mph1103I	ATGCAT	1 cut(s)	6
MscI	TGGCCA	1 cut(s)	466
MseI	TTAA	3 cut(s)	597, 687, 928
MslI	CAYNNNNRTG	1 cut(s)	9
Msp20I	TGGCCA	1 cut(s)	466
MspR9I	CCNGG	1 cut(s)	615
Mva1269I	GAATGC	1 cut(s)	296
MvaI	CCWGG	1 cut(s)	615
NdeI	CATATG	1 cut(s)	24
NdeII	GATC	3 cut(s)	57, 251, 568
NheI	GCTAGC	1 cut(s)	197
NlaIII	CATG	6 cut(s)	37, 230, 402, 465, 655, 879
NlaIV	GGNNCC	2 cut(s)	20, 262
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	1 cut(s)	879
PagI	TCATGA	1 cut(s)	651
PaqCI	CACCTGC	1 cut(s)	772
PciI	ACATGT	1 cut(s)	875
PctI	GAATGC	1 cut(s)	296
PfeI	GAWTC	4 cut(s)	335, 458, 507, 743
PflMI	CCANNNNNTGG	1 cut(s)	449
PkrI	GCNGC	3 cut(s)	196, 612, 862
PleI	GAGTC	2 cut(s)	672, 780
PpsI	GAGTC	2 cut(s)	672, 780
PscI	ACATGT	1 cut(s)	875
PshBI	ATTAAT	1 cut(s)	597
Psp124BI	GAGCTC	1 cut(s)	659
Psp6I	CCWGG	1 cut(s)	613
PspGI	CCWGG	1 cut(s)	613
PspN4I	GGNNCC	2 cut(s)	20, 262
PspPI	GGNCC	3 cut(s)	395, 452, 617
PstNI	CAGNNNCTG	1 cut(s)	493
PsuI	RGATCY	2 cut(s)	251, 568
RsaI	GTAC	1 cut(s)	824
RsaNI	GTAC	1 cut(s)	823
RseI	CAYNNNNRTG	1 cut(s)	9
SacI	GAGCTC	1 cut(s)	659
SaqAI	TTAA	3 cut(s)	597, 687, 928
SatI	GCNGC	3 cut(s)	195, 611, 861
Sau3AI	GATC	3 cut(s)	57, 251, 568
Sau96I	GGNCC	3 cut(s)	395, 452, 617
SchI	GAGTC	2 cut(s)	672, 781
ScrFI	CCNGG	1 cut(s)	615
SduI	GDGCHC	2 cut(s)	21, 659
SfaNI	GCATC	1 cut(s)	13
SfcI	CTRYAG	1 cut(s)	502
SinI	GGWCC	1 cut(s)	452
SmiMI	CAYNNNNRTG	1 cut(s)	9
SmlI	CTYRAG	1 cut(s)	189
SmoI	CTYRAG	1 cut(s)	189
Sse9I	AATT	8 cut(s)	63, 416, 594, 661, 789, 826, 847, 868
SspMI	CTAG	3 cut(s)	45, 129, 198
SstI	GAGCTC	1 cut(s)	659
StyD4I	CCNGG	1 cut(s)	613
StyI	CCWWGG	1 cut(s)	919
TaaI	ACNGT	6 cut(s)	238, 275, 378, 489, 725, 822
TaiI	ACGT	1 cut(s)	735
TaqI	TCGA	1 cut(s)	717
TasI	AATT	8 cut(s)	63, 416, 594, 661, 789, 826, 847, 868
TatI	WGTACW	1 cut(s)	822
TfiI	GAWTC	4 cut(s)	335, 458, 507, 743
Tru1I	TTAA	3 cut(s)	597, 687, 928
Tru9I	TTAA	3 cut(s)	597, 687, 928
TscAI	CASTG	1 cut(s)	494
TseI	GCWGC	3 cut(s)	194, 610, 860
TspDTI	ATGAA	5 cut(s)	156, 215, 450, 640, 695
TspRI	CASTG	1 cut(s)	494
Van91I	CCANNNNNTGG	1 cut(s)	449
VpaK11BI	GGWCC	1 cut(s)	452
VspI	ATTAAT	1 cut(s)	597
XapI	RAATTY	2 cut(s)	416, 789
XceI	RCATGY	1 cut(s)	879
XspI	CTAG	3 cut(s)	45, 129, 198
Zsp2I	ATGCAT	1 cut(s)	6

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