Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr01

Orthogroup ID

OG0001469

Physical Location & Seq

Genomic Coordinates Forward (+)

17310145 .. 17312359

Gene Structure 2215 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD01G1068900.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 747 bp

ATGGAGCTGTTGGGGAGGACTCCTATGAAAACCCAAGTGATTATTAAACTAGTGCTAGTAGTACTTCTTGTGGTGGCCATGCTAAGAGGGGCTGAGAGCAGAAGGGCAAAAGGCAAAATATTTGAATCGTTTGAGTACACTGCAATGAACTGCAGAGCTCACAGTGCTTCGCTGACTGATTTTGGAGGAGTTGGAGATGGAAAGACATCAAACACAAAGGCTTTTCATGCCGCCGTCAGTCAGCTGAGCCAGTATGAAACACAGGGCGGTGCTCAGCTCTTTGTTCCGGCAGGGAAGTGGCTGACGGGGAGCTTCAACCTCACCAGCCACTTCACTCTCTATCTCCACAAGGATGCTGTTCTCCTCGCTTCTCAAGACATTAATGAATGGCCTGTGCTCAAAGCCCTCCCATCTTACGGTCGAGGAAGAGACGCGGCAGCTGGAAGGTACACCAGTCTCATATGGGGAACAAATCTCACTGATGTCGTTGTTACAGGTGACAATGGCACAATTGATGGGCAGGGTGAGTTCTGGTGGCAACAGTTCCACAAGAAGAAGCTAAAATACACCCGCCCTTACCTGATCGAAATCATGTTCTCAACCGATGTCCAAATCTCAAACCTAACTCTCCTAAATTCTCCATCATGGAATGTCCATCCTGTTTATAGCAGTAATATTCTTGTGAAAGGGATTACTATTATAGCTCCAATTTCATCTCCAAACACAGATGGTATCAACCCAGGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Glyco_hydro_28 Pectate_lyase_3

Protein Analysis

249

Amino Acids

27.22

Weight (kDa)

9.25

Isoelectric Point (pI)

23.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	58 - 102	1e-05	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	148 - 247	2.3e-16	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)

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Publication-ready

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Orthologous Genes (Group: OG0001469)

Species	Orthologous Gene IDs
malus_domestica	MD01G1068900.v1.1
rosa_chinensis	RchiOBHm_Chr1g0328881 RchiOBHm_Chr2g0103941 RchiOBHm_Chr2g0148771 RchiOBHm_Chr5g0081751 RchiOBHm_Chr6g0251601 RchiOBHm_Chr6g0252891 RchiOBHm_Chr6g0261041
rosa_laevigata	RLG00000009276
rosa_multiflora	Rmu_sc0002607.1_g000054
rosa_roxburghii	Rroxscaffold_3G00226620 Rroxscaffold_3G00261660 Rroxscaffold_6G00387930 Rroxscaffold_7G00214780
rosa_rugosa	Rorug01G0154400.1 Rorug02G0266600.1 Rorug03G0008400 Rorug03G0200100 Rorug05G0519500 Rorug06G0005400.1 Rorug06G0320100 Rorug07G0042900
rosa_samantha	Rh1AG156000 Rh1AG219000 Rh1BG044200 Rh1DG160300 Rh2BG398200 Rh2BG403900 Rh2BG460500 Rh2CG000900 Rh2CG307500 Rh2CG547200 Rh2DG469900 Rh4CG118200 Rh4DG178300 Rh5CG178000 Rh5CG304800 Rh5CG363400 Rh5DG164400 Rh6AG114000 Rh6AG247400 Rh6BG059200 Rh6BG107600 Rh6CG031400 Rh6CG104700 Rh6DG029900 Rh6DG095500 Rh7BG290500
rosa_wichuraiana	Rw1G002350 Rw4G023590 Rw5G005770 Rw6G009740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	434
AciI	CCGC	4 cut(s)	231, 267, 434, 571
AcoI	YGGCCR	1 cut(s)	75
AcsI	RAATTY	1 cut(s)	634
AfaI	GTAC	3 cut(s)	63, 137, 449
AfiI	CCNNNNNNNGG	1 cut(s)	416
AgsI	TTSAA	2 cut(s)	125, 316
AhlI	ACTAGT	1 cut(s)	49
AjnI	CCWGG	1 cut(s)	739
AluBI	AGCT	8 cut(s)	7, 158, 244, 277, 312, 440, 559, 704
AluI	AGCT	8 cut(s)	7, 158, 244, 277, 312, 440, 559, 704
Alw21I	GWGCWC	3 cut(s)	160, 274, 399
Alw26I	GTCTC	2 cut(s)	423, 461
AoxI	GGCC	2 cut(s)	75, 389
ApeKI	GCWGC	1 cut(s)	437
ApoI	RAATTY	1 cut(s)	634
AseI	ATTAAT	1 cut(s)	381
AsuHPI	GGTGA	3 cut(s)	313, 509, 536
BaeI	ACNNNNGTAYC	2 cut(s)	439, 472
BalI	TGGCCA	1 cut(s)	77
BanII	GRGCYC	1 cut(s)	160
BarI	GAAGNNNNNNTAC	2 cut(s)	548, 580
Bbv12I	GWGCWC	3 cut(s)	160, 274, 399
BbvI	GCAGC	1 cut(s)	449
BccI	CCATC	6 cut(s)	191, 418, 509, 649, 663, 722
BceAI	ACGGC	1 cut(s)	218
BciT130I	CCWGG	1 cut(s)	741
BcoDI	GTCTC	2 cut(s)	423, 461
BcuI	ACTAGT	1 cut(s)	49
BfaI	CTAG	2 cut(s)	50, 56
BfmI	CTRYAG	1 cut(s)	151
BisI	GCNGC	3 cut(s)	231, 435, 438
BlpI	GCTNAGC	2 cut(s)	245, 273
BlsI	GCNGC	3 cut(s)	232, 436, 439
BmcAI	AGTACT	1 cut(s)	63
Bme1390I	CCNGG	1 cut(s)	741
BmrFI	CCNGG	1 cut(s)	741
BmsI	GCATC	1 cut(s)	343
Bpu1102I	GCTNAGC	2 cut(s)	245, 273
BpuEI	CTTGAG	1 cut(s)	357
BsaBI	GATNNNNATC	1 cut(s)	587
BsaJI	CCNNGG	1 cut(s)	739
Bsc4I	CCNNNNNNNGG	1 cut(s)	416
Bse1I	ACTGG	2 cut(s)	250, 453
Bse3DI	GCAATG	1 cut(s)	150
Bse8I	GATNNNNATC	1 cut(s)	587
BseBI	CCWGG	1 cut(s)	741
BseDI	CCNNGG	1 cut(s)	739
BseGI	GGATG	2 cut(s)	358, 655
BseJI	GATNNNNATC	1 cut(s)	587
BseLI	CCNNNNNNNGG	1 cut(s)	416
BseMI	GCAATG	1 cut(s)	150
BseMII	CTCAG	3 cut(s)	84, 236, 287
BseNI	ACTGG	2 cut(s)	250, 453
BseRI	GAGGAG	2 cut(s)	201, 353
BseXI	GCAGC	1 cut(s)	449
Bsh1236I	CGCG	1 cut(s)	434
Bsh1285I	CGRYCG	1 cut(s)	421
BshFI	GGCC	2 cut(s)	77, 391
BsiEI	CGRYCG	1 cut(s)	421
BsiHKAI	GWGCWC	3 cut(s)	160, 274, 399
BsiSI	CCGG	1 cut(s)	287
BslI	CCNNNNNNNGG	1 cut(s)	416
BsmAI	GTCTC	2 cut(s)	423, 461
BsmBI	CGTCTC	1 cut(s)	423
BsnI	GGCC	2 cut(s)	77, 391
Bsp1286I	GDGCHC	3 cut(s)	160, 274, 399
Bsp143I	GATC	1 cut(s)	582
Bsp1720I	GCTNAGC	2 cut(s)	245, 273
BspACI	CCGC	4 cut(s)	231, 267, 434, 571
BspANI	GGCC	2 cut(s)	77, 391
BspCNI	CTCAG	3 cut(s)	85, 237, 286
BspFNI	CGCG	1 cut(s)	434
BspMAI	CTGCAG	1 cut(s)	155
BsrDI	GCAATG	1 cut(s)	150
BsrI	ACTGG	2 cut(s)	250, 453
BssECI	CCNNGG	1 cut(s)	739
BssMI	GATC	1 cut(s)	582
Bst2UI	CCWGG	1 cut(s)	741
Bst4CI	ACNGT	3 cut(s)	164, 419, 543
Bst6I	CTCTTC	1 cut(s)	421
BstDEI	CTNAG	4 cut(s)	83, 93, 245, 273
BstF5I	GGATG	2 cut(s)	358, 655
BstFNI	CGCG	1 cut(s)	434
BstKTI	GATC	1 cut(s)	585
BstMAI	GTCTC	2 cut(s)	423, 461
BstMBI	GATC	1 cut(s)	582
BstMCI	CGRYCG	1 cut(s)	421
BstMWI	GCNNNNNNNGC	2 cut(s)	164, 227
BstNI	CCWGG	1 cut(s)	741
BstSCI	CCNGG	1 cut(s)	739
BstSFI	CTRYAG	1 cut(s)	151
BstUI	CGCG	1 cut(s)	434
BstV1I	GCAGC	1 cut(s)	449
BsuRI	GGCC	2 cut(s)	77, 391
BtsCI	GGATG	2 cut(s)	358, 655
BtsI	GCAGTG	1 cut(s)	138
BtsIMutI	CAGTG	3 cut(s)	138, 169, 477
CseI	GACGC	1 cut(s)	440
Csp6I	GTAC	3 cut(s)	62, 136, 448
CviAII	CATG	4 cut(s)	79, 227, 592, 645
CviQI	GTAC	3 cut(s)	62, 136, 448
DdeI	CTNAG	4 cut(s)	83, 93, 245, 273
DpnI	GATC	1 cut(s)	584
DpnII	GATC	1 cut(s)	582
EaeI	YGGCCR	1 cut(s)	75
Eam1104I	CTCTTC	1 cut(s)	421
EarI	CTCTTC	1 cut(s)	421
Ecl136II	GAGCTC	1 cut(s)	158
Eco24I	GRGCYC	1 cut(s)	160
Eco53kI	GAGCTC	1 cut(s)	158
EcoICRI	GAGCTC	1 cut(s)	158
EcoRII	CCWGG	1 cut(s)	739
EcoT38I	GRGCYC	1 cut(s)	160
Esp3I	CGTCTC	1 cut(s)	423
FaeI	CATG	4 cut(s)	82, 230, 595, 648
FatI	CATG	4 cut(s)	78, 226, 591, 644
FauI	CCCGC	1 cut(s)	578
FauNDI	CATATG	1 cut(s)	461
Fnu4HI	GCNGC	3 cut(s)	231, 435, 438
FokI	GGATG	2 cut(s)	365, 642
FriOI	GRGCYC	1 cut(s)	160
Fsp4HI	GCNGC	3 cut(s)	231, 435, 438
FspBI	CTAG	2 cut(s)	50, 56
GluI	GCNGC	3 cut(s)	231, 435, 438
HaeIII	GGCC	2 cut(s)	77, 391
HapII	CCGG	1 cut(s)	287
HgaI	GACGC	1 cut(s)	440
Hin1II	CATG	4 cut(s)	82, 230, 595, 648
HinfI	GANTC	2 cut(s)	19, 125
HpaII	CCGG	1 cut(s)	287
HphI	GGTGA	3 cut(s)	313, 509, 536
Hpy166II	GTNNAC	2 cut(s)	138, 450
Hpy188III	TCNNGA	1 cut(s)	374
Hpy8I	GTNNAC	2 cut(s)	138, 450
HpyAV	CCTTC	2 cut(s)	96, 438
HpyCH4III	ACNGT	3 cut(s)	164, 419, 543
HpyCH4V	TGCA	2 cut(s)	143, 153
HpyF10VI	GCNNNNNNNGC	2 cut(s)	164, 227
HpyF3I	CTNAG	4 cut(s)	83, 93, 245, 273
Hsp92II	CATG	4 cut(s)	82, 230, 595, 648
Kzo9I	GATC	1 cut(s)	582
LmnI	GCTCC	3 cut(s)	4, 309, 709
Lsp1109I	GCAGC	1 cut(s)	449
LweI	GCATC	1 cut(s)	343
MaeI	CTAG	2 cut(s)	50, 56
MaeIII	GTNAC	2 cut(s)	490, 497
MalI	GATC	1 cut(s)	584
MboI	GATC	1 cut(s)	582
MboII	GAAGA	2 cut(s)	438, 565
MfeI	CAATTG	1 cut(s)	510
MhlI	GDGCHC	3 cut(s)	160, 274, 399
MlsI	TGGCCA	1 cut(s)	77
MluCI	AATT	3 cut(s)	510, 634, 708
MluNI	TGGCCA	1 cut(s)	77
MlyI	GAGTC	1 cut(s)	13
MmeI	TCCRAC	1 cut(s)	172
MnlI	CCTC	7 cut(s)	9, 80, 179, 329, 374, 416, 416
Mox20I	TGGCCA	1 cut(s)	77
MscI	TGGCCA	1 cut(s)	77
MseI	TTAA	2 cut(s)	45, 381
MslI	CAYNNNNRTG	2 cut(s)	143, 351
Msp20I	TGGCCA	1 cut(s)	77
MspA1I	CMGCKG	2 cut(s)	244, 440
MspI	CCGG	1 cut(s)	287
MspR9I	CCNGG	1 cut(s)	741
MunI	CAATTG	1 cut(s)	510
MvaI	CCWGG	1 cut(s)	741
MvnI	CGCG	1 cut(s)	434
MwoI	GCNNNNNNNGC	2 cut(s)	164, 227
NdeI	CATATG	1 cut(s)	461
NdeII	GATC	1 cut(s)	582
NlaIII	CATG	4 cut(s)	82, 230, 595, 648
NmuCI	GTSAC	1 cut(s)	497
PfeI	GAWTC	1 cut(s)	125
PkrI	GCNGC	3 cut(s)	232, 436, 439
PleI	GAGTC	1 cut(s)	13
PpsI	GAGTC	1 cut(s)	13
PshBI	ATTAAT	1 cut(s)	381
Psp124BI	GAGCTC	1 cut(s)	160
Psp6I	CCWGG	1 cut(s)	739
PspGI	CCWGG	1 cut(s)	739
PstI	CTGCAG	1 cut(s)	155
PvuII	CAGCTG	2 cut(s)	244, 440
RsaI	GTAC	3 cut(s)	63, 137, 449
RsaNI	GTAC	3 cut(s)	62, 136, 448
RseI	CAYNNNNRTG	2 cut(s)	143, 351
SacI	GAGCTC	1 cut(s)	160
SaqAI	TTAA	2 cut(s)	45, 381
SatI	GCNGC	3 cut(s)	231, 435, 438
Sau3AI	GATC	1 cut(s)	582
ScaI	AGTACT	1 cut(s)	63
SchI	GAGTC	1 cut(s)	13
ScrFI	CCNGG	1 cut(s)	741
SduI	GDGCHC	3 cut(s)	160, 274, 399
SfaNI	GCATC	1 cut(s)	343
SfcI	CTRYAG	1 cut(s)	151
SmiMI	CAYNNNNRTG	2 cut(s)	143, 351
SmlI	CTYRAG	1 cut(s)	372
SmoI	CTYRAG	1 cut(s)	372
SpeI	ACTAGT	1 cut(s)	49
Sse9I	AATT	3 cut(s)	510, 634, 708
SsiI	CCGC	4 cut(s)	231, 267, 434, 571
SspI	AATATT	2 cut(s)	120, 676
SspMI	CTAG	2 cut(s)	50, 56
SstI	GAGCTC	1 cut(s)	160
StyD4I	CCNGG	1 cut(s)	739
TaaI	ACNGT	3 cut(s)	164, 419, 543
TaqI	TCGA	2 cut(s)	421, 585
TasI	AATT	3 cut(s)	510, 634, 708
TatI	WGTACW	2 cut(s)	61, 135
TauI	GCSGC	2 cut(s)	233, 437
TfiI	GAWTC	1 cut(s)	125
Tru1I	TTAA	2 cut(s)	45, 381
Tru9I	TTAA	2 cut(s)	45, 381
TscAI	CASTG	3 cut(s)	145, 169, 484
TseFI	GTSAC	1 cut(s)	497
TseI	GCWGC	1 cut(s)	437
Tsp45I	GTSAC	1 cut(s)	497
TspDTI	ATGAA	6 cut(s)	41, 161, 215, 270, 399, 702
TspRI	CASTG	3 cut(s)	145, 169, 484
VspI	ATTAAT	1 cut(s)	381
XapI	RAATTY	1 cut(s)	634
XspI	CTAG	2 cut(s)	50, 56
ZrmI	AGTACT	1 cut(s)	63

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