Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr02

Orthogroup ID

OG0014774

Physical Location & Seq

Genomic Coordinates Reverse (-)

35424424 .. 35425188

Gene Structure 765 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD02G1298700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 648 bp

ATGCAGAGGGGTCTCACTGGGTTTTACACATACGCCATATTTGAGCGTCTAGAAGGGTGGCCACAATTGCATATCGATCAGATTAGAATTGCTTTCAAGCTTAGACAAGATAAATTTAAGTTCATGGTTGTATCAGACGACATACAAAGGTTCATGCCAACAGCCAAAGACCGTGGCAAAGGTTGGCAACTTGCTTATAAAGAAGCTGTTCTTTTAACGAATCCAAGCAATCCTGAGTTTAGAGGAGAGGAGGATGACAAGTACCAGTACTCAAGGGAGAACAAAGACATTAAGTGGTCACTACGTTGGGAGCGAAGTTGGGATGAGCTTTGCCGAAGGGTTTTTGGGACAGTCTATGTGCATCTGAACTCAGACGTTCCAGGCTTGAATCAGTTGAATATGTCCCTCTCGCTGTGGAATAATGCTAATGGGCAGATGCTTAAAGAAGTAAATAGTTGGTCCGAAGACTTTCCTAGCTCCAATGGACGTGGATCAGTTGCCGGTCAACTACTAATACGGGATTCATACATTAACGAGGGCGTATTTGGGGCTAGTTCTGCTTATGTGGGATTGGCTGCACCTGGAGACGTGGGATCATGGCAAAGGGAATGCAAGGGCTATCGGTTCTGGACTCGAGCCGACAATTGA

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

CBM-like Rhamnogal_lyase fn3_3

Protein Analysis

216

Amino Acids

24.94

Weight (kDa)

7.72

Isoelectric Point (pI)

33.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rhamnogal_lyase	PF06045	1 - 83	3.3e-34	Rhamnogalacturonate lyase family
fn3_3	PF14686	185 - 214	6e-07	Polysaccharide lyase family 4, domain II

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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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0014774)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g37410
malus_domestica	MD02G1298700.v1.1 MD02G1298900.v1.1
rosa_chinensis	RchiOBHm_Chr2g0088441 RchiOBHm_Chr2g0150211 RchiOBHm_Chr2g0150221
rosa_laevigata	RLG00000015955 RLG00000020479
rosa_multiflora	Rmu_co8045638.1_g000001 Rmu_co8440155.1_g000001 Rmu_sc0004733.1_g000016 Rmu_sc0037686.1_g000001 Rmu_ssc0000020.1_g000007
rosa_roxburghii	Rroxscaffold_2G00097360
rosa_samantha	Rh2BG491200 Rh2CG039200 Rh2DG500000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	198
AclWI	GGATC	2 cut(s)	499, 601
AcoI	YGGCCR	1 cut(s)	59
AcsI	RAATTY	1 cut(s)	113
AfaI	GTAC	2 cut(s)	263, 269
AgsI	TTSAA	3 cut(s)	97, 388, 397
AjiI	CACGTC	2 cut(s)	488, 589
AjnI	CCWGG	2 cut(s)	379, 580
AluBI	AGCT	4 cut(s)	100, 206, 328, 477
AluI	AGCT	4 cut(s)	100, 206, 328, 477
Alw26I	GTCTC	2 cut(s)	17, 579
AlwI	GGATC	2 cut(s)	499, 601
Ama87I	CYCGRG	1 cut(s)	633
AoxI	GGCC	1 cut(s)	59
ApeKI	GCWGC	1 cut(s)	575
ApoI	RAATTY	1 cut(s)	113
Asp700I	GAANNNNTTC	2 cut(s)	207, 468
AspS9I	GGNCC	1 cut(s)	459
AvaI	CYCGRG	1 cut(s)	633
AvaII	GGWCC	1 cut(s)	459
BalI	TGGCCA	1 cut(s)	61
BbsI	GAAGAC	1 cut(s)	471
BbvI	GCAGC	1 cut(s)	562
BciT130I	CCWGG	2 cut(s)	381, 582
BcoDI	GTCTC	2 cut(s)	17, 579
BfaI	CTAG	3 cut(s)	50, 474, 552
BisI	GCNGC	1 cut(s)	576
BlsI	GCNGC	1 cut(s)	577
BmcAI	AGTACT	1 cut(s)	269
Bme1390I	CCNGG	2 cut(s)	381, 582
Bme18I	GGWCC	1 cut(s)	459
BmeT110I	CYCGRG	1 cut(s)	633
BmgBI	CACGTC	2 cut(s)	488, 589
BmgT120I	GGNCC	1 cut(s)	459
BmrFI	CCNGG	2 cut(s)	381, 582
BmrI	ACTGGG	1 cut(s)	27
BmsI	GCATC	2 cut(s)	370, 426
BmuI	ACTGGG	1 cut(s)	27
BpiI	GAAGAC	1 cut(s)	471
BpmI	CTGGAG	1 cut(s)	603
BpuEI	CTTGAG	1 cut(s)	256
Bsa29I	ATCGAT	1 cut(s)	75
BsaI	GGTCTC	1 cut(s)	17
BsaJI	CCNNGG	1 cut(s)	172
Bse118I	RCCGGY	1 cut(s)	500
Bse1I	ACTGG	2 cut(s)	22, 265
BseBI	CCWGG	2 cut(s)	381, 582
BseCI	ATCGAT	1 cut(s)	75
BseDI	CCNNGG	1 cut(s)	172
BseGI	GGATG	2 cut(s)	259, 328
BseMII	CTCAG	2 cut(s)	225, 384
BseNI	ACTGG	2 cut(s)	22, 265
BseRI	GAGGAG	2 cut(s)	258, 263
BseXI	GCAGC	1 cut(s)	562
BsgI	GTGCAG	1 cut(s)	561
BshFI	GGCC	1 cut(s)	61
BshVI	ATCGAT	1 cut(s)	75
BsiHKCI	CYCGRG	1 cut(s)	633
BsiSI	CCGG	1 cut(s)	501
BslFI	GGGAC	2 cut(s)	361, 388
BsmAI	GTCTC	2 cut(s)	17, 579
BsmBI	CGTCTC	1 cut(s)	579
BsmFI	GGGAC	2 cut(s)	361, 388
BsmI	GAATGC	1 cut(s)	614
BsnI	GGCC	1 cut(s)	61
Bso31I	GGTCTC	1 cut(s)	17
BsoBI	CYCGRG	1 cut(s)	633
Bsp143I	GATC	3 cut(s)	76, 491, 593
BspANI	GGCC	1 cut(s)	61
BspCNI	CTCAG	2 cut(s)	226, 383
BspDI	ATCGAT	1 cut(s)	75
BspPI	GGATC	2 cut(s)	499, 601
BspTNI	GGTCTC	1 cut(s)	17
BsrFI	RCCGGY	1 cut(s)	500
BsrI	ACTGG	2 cut(s)	22, 265
BssAI	RCCGGY	1 cut(s)	500
BssECI	CCNNGG	1 cut(s)	172
BssMI	GATC	3 cut(s)	76, 491, 593
Bst2UI	CCWGG	2 cut(s)	381, 582
Bst4CI	ACNGT	2 cut(s)	173, 352
BstDEI	CTNAG	3 cut(s)	101, 234, 370
BstDSI	CCRYGG	1 cut(s)	172
BstF5I	GGATG	2 cut(s)	259, 328
BstKTI	GATC	3 cut(s)	79, 494, 596
BstMAI	GTCTC	2 cut(s)	17, 579
BstMBI	GATC	3 cut(s)	76, 491, 593
BstMWI	GCNNNNNNNGC	2 cut(s)	67, 557
BstNI	CCWGG	2 cut(s)	381, 582
BstSCI	CCNGG	2 cut(s)	379, 580
BstV1I	GCAGC	1 cut(s)	562
BstV2I	GAAGAC	1 cut(s)	471
Bsu15I	ATCGAT	1 cut(s)	75
BsuRI	GGCC	1 cut(s)	61
BsuTUI	ATCGAT	1 cut(s)	75
BtgI	CCRYGG	1 cut(s)	172
BtrI	CACGTC	2 cut(s)	488, 589
BtsCI	GGATG	2 cut(s)	259, 328
BtsIMutI	CAGTG	1 cut(s)	15
Cfr10I	RCCGGY	1 cut(s)	500
Cfr13I	GGNCC	1 cut(s)	459
ClaI	ATCGAT	1 cut(s)	75
CseI	GACGC	1 cut(s)	35
Csp6I	GTAC	2 cut(s)	262, 268
CspCI	CAANNNNNGTGG	4 cut(s)	154, 189, 469, 504
CviAII	CATG	3 cut(s)	124, 154, 597
CviQI	GTAC	2 cut(s)	262, 268
DdeI	CTNAG	3 cut(s)	101, 234, 370
DpnI	GATC	3 cut(s)	78, 493, 595
DpnII	GATC	3 cut(s)	76, 491, 593
EaeI	YGGCCR	1 cut(s)	59
Eco31I	GGTCTC	1 cut(s)	17
Eco47I	GGWCC	1 cut(s)	459
Eco88I	CYCGRG	1 cut(s)	633
EcoRII	CCWGG	2 cut(s)	379, 580
Esp3I	CGTCTC	1 cut(s)	579
FaeI	CATG	3 cut(s)	127, 157, 600
FalI	AAGNNNNNCTT	2 cut(s)	195, 227
FaqI	GGGAC	2 cut(s)	361, 388
FatI	CATG	3 cut(s)	123, 153, 596
Fnu4HI	GCNGC	1 cut(s)	576
FokI	GGATG	2 cut(s)	266, 335
Fsp4HI	GCNGC	1 cut(s)	576
FspBI	CTAG	3 cut(s)	50, 474, 552
GluI	GCNGC	1 cut(s)	576
GsuI	CTGGAG	1 cut(s)	603
HaeIII	GGCC	1 cut(s)	61
HapII	CCGG	1 cut(s)	501
HgaI	GACGC	1 cut(s)	35
Hin1II	CATG	3 cut(s)	127, 157, 600
HincII	GTYRAC	1 cut(s)	506
HindII	GTYRAC	1 cut(s)	506
HindIII	AAGCTT	1 cut(s)	98
HinfI	GANTC	4 cut(s)	220, 388, 521, 631
HpaII	CCGG	1 cut(s)	501
Hpy166II	GTNNAC	1 cut(s)	506
Hpy188I	TCNGA	5 cut(s)	81, 136, 366, 373, 463
Hpy188III	TCNNGA	3 cut(s)	50, 233, 628
Hpy8I	GTNNAC	1 cut(s)	506
HpyAV	CCTTC	2 cut(s)	47, 330
HpyCH4III	ACNGT	2 cut(s)	173, 352
HpyCH4IV	ACGT	4 cut(s)	304, 375, 487, 588
HpyCH4V	TGCA	5 cut(s)	4, 70, 361, 578, 612
HpyF10VI	GCNNNNNNNGC	2 cut(s)	67, 557
HpyF3I	CTNAG	3 cut(s)	101, 234, 370
HpySE526I	ACGT	4 cut(s)	304, 375, 487, 588
Hsp92II	CATG	3 cut(s)	127, 157, 600
Kzo9I	GATC	3 cut(s)	76, 491, 593
LmnI	GCTCC	2 cut(s)	310, 482
LpnPI	CCDG	9 cut(s)	3, 246, 278, 366, 393, 514, 567, 594, 613
Lsp1109I	GCAGC	1 cut(s)	562
LweI	GCATC	2 cut(s)	370, 426
MaeI	CTAG	3 cut(s)	50, 474, 552
MaeII	ACGT	4 cut(s)	304, 375, 487, 588
MaeIII	GTNAC	1 cut(s)	297
MalI	GATC	3 cut(s)	78, 493, 595
MboI	GATC	3 cut(s)	76, 491, 593
MboII	GAAGA	1 cut(s)	476
MfeI	CAATTG	2 cut(s)	65, 643
MlsI	TGGCCA	1 cut(s)	61
MluCI	AATT	4 cut(s)	65, 87, 113, 643
MluNI	TGGCCA	1 cut(s)	61
MlyI	GAGTC	1 cut(s)	625
MnlI	CCTC	5 cut(s)	236, 241, 244, 416, 529
Mox20I	TGGCCA	1 cut(s)	61
MroXI	GAANNNNTTC	2 cut(s)	207, 468
MscI	TGGCCA	1 cut(s)	61
MseI	TTAA	5 cut(s)	117, 215, 291, 441, 531
Msp20I	TGGCCA	1 cut(s)	61
MspI	CCGG	1 cut(s)	501
MspR9I	CCNGG	2 cut(s)	381, 582
MunI	CAATTG	2 cut(s)	65, 643
Mva1269I	GAATGC	1 cut(s)	614
MvaI	CCWGG	2 cut(s)	381, 582
MwoI	GCNNNNNNNGC	2 cut(s)	67, 557
NdeII	GATC	3 cut(s)	76, 491, 593
NlaIII	CATG	3 cut(s)	127, 157, 600
NmuCI	GTSAC	1 cut(s)	297
PaeR7I	CTCGAG	1 cut(s)	633
PcsI	WCGNNNNNNNCGW	1 cut(s)	310
PctI	GAATGC	1 cut(s)	614
PdmI	GAANNNNTTC	2 cut(s)	207, 468
PfeI	GAWTC	3 cut(s)	220, 388, 521
PkrI	GCNGC	1 cut(s)	577
PleI	GAGTC	1 cut(s)	625
PpsI	GAGTC	1 cut(s)	625
PsiI	TTATAA	1 cut(s)	198
Psp6I	CCWGG	2 cut(s)	379, 580
PspGI	CCWGG	2 cut(s)	379, 580
PspPI	GGNCC	1 cut(s)	459
PspXI	VCTCGAGB	1 cut(s)	633
RsaI	GTAC	2 cut(s)	263, 269
RsaNI	GTAC	2 cut(s)	262, 268
SaqAI	TTAA	5 cut(s)	117, 215, 291, 441, 531
SatI	GCNGC	1 cut(s)	576
Sau3AI	GATC	3 cut(s)	76, 491, 593
Sau96I	GGNCC	1 cut(s)	459
ScaI	AGTACT	1 cut(s)	269
SchI	GAGTC	1 cut(s)	625
ScrFI	CCNGG	2 cut(s)	381, 582
SfaNI	GCATC	2 cut(s)	370, 426
Sfr274I	CTCGAG	1 cut(s)	633
SinI	GGWCC	1 cut(s)	459
SlaI	CTCGAG	1 cut(s)	633
SmlI	CTYRAG	2 cut(s)	271, 633
SmoI	CTYRAG	2 cut(s)	271, 633
Sse9I	AATT	4 cut(s)	65, 87, 113, 643
SspMI	CTAG	3 cut(s)	50, 474, 552
StyD4I	CCNGG	2 cut(s)	379, 580
TaaI	ACNGT	2 cut(s)	173, 352
TaiI	ACGT	4 cut(s)	307, 378, 490, 591
TaqI	TCGA	2 cut(s)	75, 634
TasI	AATT	4 cut(s)	65, 87, 113, 643
TatI	WGTACW	1 cut(s)	267
TfiI	GAWTC	3 cut(s)	220, 388, 521
Tru1I	TTAA	5 cut(s)	117, 215, 291, 441, 531
Tru9I	TTAA	5 cut(s)	117, 215, 291, 441, 531
TscAI	CASTG	1 cut(s)	22
TseFI	GTSAC	1 cut(s)	297
TseI	GCWGC	1 cut(s)	575
Tsp45I	GTSAC	1 cut(s)	297
TspDTI	ATGAA	3 cut(s)	112, 142, 513
TspRI	CASTG	1 cut(s)	22
VpaK11BI	GGWCC	1 cut(s)	459
XapI	RAATTY	1 cut(s)	113
XbaI	TCTAGA	1 cut(s)	49
XhoI	CTCGAG	1 cut(s)	633
XmnI	GAANNNNTTC	2 cut(s)	207, 468
XspI	CTAG	3 cut(s)	50, 474, 552
ZrmI	AGTACT	1 cut(s)	269

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