Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr04

Orthogroup ID

OG0003932

Physical Location & Seq

Genomic Coordinates Reverse (-)

15401655 .. 15404088

Gene Structure 2434 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD04G1088800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 657 bp

ATGGACAGAGAATGGGGCTCAAAGCCCGGAAGCGGAGGAGCCGCCTCTGCACAGAACGAAGCCATCGACCGCCGCGAGCGTCTCCGGCGGCTCGCGCTTGAGACCATCGATCTCGCCAAAGATCCCTATTTCATGCGCAATCACCTTGGAAGCTATGAGTGTAAGCTTTGCTTGACGCTGCACAACAACGAGGGCAACTACTTGGCGCATACACAAGGCAAGCGCCATCAGACTAATTTGGCAAAACGAGCTGCTCGCGAGGCGAAGGACGCTCCTGCGCAGCCCCAGCCGCACAAGCGCAAGGTCAATGTGCGAAAGACGGTCAAAATTGGTAGGCCGGGGTATCGAGTGACAAAGCAGTTTGATGGAGAAACAAAGCAGAGGTCTCTTCTCTTCCAGATTGAATATCCTGAGATTGAAGATAATACAAAGCCAAGGCATCGTTTTATGTCATCTTATGAGCAGGCAGGGCTAAGGGTTCAACCTGTCGACAAAAAGTACCAGTATCTTCTGTTTGCAGCCGAGCCTTATGAGATAGTTGCTTTCAAGGTTCCTAACATTGAGATCGACAAAACTGATAAGTTTTTCTCACATTGGGATCCAGACTCAAAAATGTTCACAGGAGAGTCTATGGGGGAAAGAAGGGAAGAAGGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0005686 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0007399 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0010720 GO:0010975 GO:0010976 GO:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0022008 GO:0022607 GO:0022613 GO:0022618 GO:0030154 GO:0030532 GO:0031344 GO:0031346 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045595 GO:0045597 GO:0045664 GO:0045666 GO:0046483 GO:0048518 GO:0048522 GO:0048699 GO:0048731 GO:0048856 GO:0048869 GO:0050767 GO:0050769 GO:0050789 GO:0050793 GO:0050794 GO:0051094 GO:0051128 GO:0051130 GO:0051239 GO:0051240 GO:0051960 GO:0051962 GO:0060284 GO:0065003 GO:0065007 GO:0070013 GO:0071004 GO:0071010 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:0097525 GO:0120035 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904 GO:2000026

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

SF3A2 zf-met

Protein Analysis

219

Amino Acids

25.29

Weight (kDa)

9.39

Isoelectric Point (pI)

50.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-met	PF12874	52 - 76	6.2e-07	Zinc-finger of C2H2 type
SF3A2	PF16835	110 - 206	4.8e-35	Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11)

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: OG0003932)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G32600
fragaria_vesca	FvH4_6g16880 FvH4_6g16880 FvH4_6g16880 FvH4_6g16880
malus_domestica	MD04G1088800.v1.1 MD12G1106500.v1.1
prunus_persica	Prupe.4G071900_v2.0.a1 Prupe.7G125300_v2.0.a1 Prupe.7G125300_v2.0.a1
pyrus_communis	pycom04g08310 pycom12g10700
rosa_chinensis	RchiOBHm_Chr3g0470901 RchiOBHm_Chr7g0191101
rosa_laevigata	RLG00000024235 RLG00000025908
rosa_multiflora	Rmu_co8030388.1_g000001 Rmu_sc0005903.1_g000001 Rmu_sc0010267.1_g000002 Rmu_sc0030335.1_g000001
rosa_roxburghii	Rroxscaffold_3G00264030 Rroxscaffold_6G00410430 Rroxscaffold_6G00426670
rosa_rugosa	Rorug03G0113500 Rorug06G0508500
rosa_samantha	Rh1AG146000 Rh1DG152700 Rh3AG163300 Rh3BG188700 Rh3CG178700 Rh3DG187400 Rh7BG118500 Rh7CG121000
rosa_wichuraiana	Rw3G015380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	137, 279
AccI	GTMKAC	1 cut(s)	489
AccII	CGCG	3 cut(s)	75, 95, 258
AciI	CCGC	6 cut(s)	33, 42, 70, 73, 88, 290
AclWI	GGATC	3 cut(s)	116, 593, 606
AfaI	GTAC	1 cut(s)	500
AfiI	CCNNNNNNNGG	1 cut(s)	32
AgsI	TTSAA	4 cut(s)	404, 419, 482, 547
AluBI	AGCT	3 cut(s)	153, 166, 251
AluI	AGCT	3 cut(s)	153, 166, 251
Alw26I	GTCTC	3 cut(s)	86, 95, 390
AlwI	GGATC	3 cut(s)	116, 593, 606
AoxI	GGCC	1 cut(s)	335
ApeKI	GCWGC	4 cut(s)	178, 251, 280, 518
ArsI	GACNNNNNNTTYG	2 cut(s)	368, 400
AspLEI	GCGC	6 cut(s)	97, 138, 208, 225, 280, 300
AsuC2I	CCSGG	2 cut(s)	27, 339
AsuHPI	GGTGA	1 cut(s)	134
BamHI	GGATCC	1 cut(s)	598
BanII	GRGCYC	1 cut(s)	20
BbvI	GCAGC	4 cut(s)	165, 238, 292, 530
BccI	CCATC	4 cut(s)	71, 113, 234, 359
BcnI	CCSGG	2 cut(s)	27, 339
BcoDI	GTCTC	3 cut(s)	86, 95, 390
BfoI	RGCGCY	1 cut(s)	226
BisI	GCNGC	8 cut(s)	42, 73, 89, 179, 252, 281, 290, 519
BlsI	GCNGC	8 cut(s)	43, 74, 90, 180, 253, 282, 291, 520
Bme1390I	CCNGG	2 cut(s)	27, 339
BmiI	GGNNCC	3 cut(s)	40, 552, 600
BmrFI	CCNGG	2 cut(s)	27, 339
BmsI	GCATC	1 cut(s)	448
Bpu10I	CCTNAGC	1 cut(s)	473
BpuEI	CTTGAG	1 cut(s)	119
BpuMI	CCSGG	2 cut(s)	27, 339
Bsa29I	ATCGAT	1 cut(s)	108
BsaI	GGTCTC	2 cut(s)	95, 390
BsaJI	CCNNGG	3 cut(s)	145, 338, 434
Bsc4I	CCNNNNNNNGG	1 cut(s)	32
Bse1I	ACTGG	1 cut(s)	502
BseCI	ATCGAT	1 cut(s)	108
BseDI	CCNNGG	3 cut(s)	145, 338, 434
BseLI	CCNNNNNNNGG	1 cut(s)	32
BseMII	CTCAG	1 cut(s)	402
BseNI	ACTGG	1 cut(s)	502
BseRI	GAGGAG	1 cut(s)	51
BseXI	GCAGC	4 cut(s)	165, 238, 292, 530
BseYI	CCCAGC	1 cut(s)	285
BsgI	GTGCAG	2 cut(s)	33, 164
Bsh1236I	CGCG	3 cut(s)	75, 95, 258
Bsh1285I	CGRYCG	1 cut(s)	70
BshFI	GGCC	1 cut(s)	337
BshVI	ATCGAT	1 cut(s)	108
BsiEI	CGRYCG	1 cut(s)	70
BsiSI	CCGG	3 cut(s)	27, 85, 338
BslI	CCNNNNNNNGG	1 cut(s)	32
BsmAI	GTCTC	3 cut(s)	86, 95, 390
BsmBI	CGTCTC	1 cut(s)	86
BsnI	GGCC	1 cut(s)	337
Bso31I	GGTCTC	2 cut(s)	95, 390
Bsp1286I	GDGCHC	1 cut(s)	20
Bsp143I	GATC	4 cut(s)	109, 121, 564, 598
Bsp68I	TCGCGA	1 cut(s)	258
BspACI	CCGC	6 cut(s)	33, 42, 70, 73, 88, 290
BspANI	GGCC	1 cut(s)	337
BspCNI	CTCAG	1 cut(s)	403
BspDI	ATCGAT	1 cut(s)	108
BspFNI	CGCG	3 cut(s)	75, 95, 258
BspLI	GGNNCC	3 cut(s)	40, 552, 600
BspPI	GGATC	3 cut(s)	116, 593, 606
BspTNI	GGTCTC	2 cut(s)	95, 390
BsrI	ACTGG	1 cut(s)	502
BssECI	CCNNGG	3 cut(s)	145, 338, 434
BssMI	GATC	4 cut(s)	109, 121, 564, 598
BssT1I	CCWWGG	2 cut(s)	145, 434
Bst4CI	ACNGT	1 cut(s)	322
Bst6I	CTCTTC	2 cut(s)	393, 398
BstC8I	GCNNGC	5 cut(s)	77, 93, 221, 256, 465
BstDEI	CTNAG	2 cut(s)	411, 473
BstFNI	CGCG	3 cut(s)	75, 95, 258
BstH2I	RGCGCY	1 cut(s)	226
BstHHI	GCGC	6 cut(s)	97, 138, 208, 225, 280, 300
BstKTI	GATC	4 cut(s)	112, 124, 567, 601
BstMAI	GTCTC	3 cut(s)	86, 95, 390
BstMBI	GATC	4 cut(s)	109, 121, 564, 598
BstMCI	CGRYCG	1 cut(s)	70
BstSCI	CCNGG	2 cut(s)	25, 337
BstUI	CGCG	3 cut(s)	75, 95, 258
BstV1I	GCAGC	4 cut(s)	165, 238, 292, 530
BstX2I	RGATCY	2 cut(s)	121, 598
BstYI	RGATCY	2 cut(s)	121, 598
Bsu15I	ATCGAT	1 cut(s)	108
BsuRI	GGCC	1 cut(s)	337
BsuTUI	ATCGAT	1 cut(s)	108
BtuMI	TCGCGA	1 cut(s)	258
Cac8I	GCNNGC	5 cut(s)	77, 93, 221, 256, 465
CfoI	GCGC	6 cut(s)	97, 138, 208, 225, 280, 300
ClaI	ATCGAT	1 cut(s)	108
CseI	GACGC	3 cut(s)	68, 184, 278
Csp6I	GTAC	1 cut(s)	499
CviAII	CATG	1 cut(s)	133
CviQI	GTAC	1 cut(s)	499
DdeI	CTNAG	2 cut(s)	411, 473
DpnI	GATC	4 cut(s)	111, 123, 566, 600
DpnII	GATC	4 cut(s)	109, 121, 564, 598
Eam1104I	CTCTTC	2 cut(s)	393, 398
EarI	CTCTTC	2 cut(s)	393, 398
Eco130I	CCWWGG	2 cut(s)	145, 434
Eco24I	GRGCYC	1 cut(s)	20
Eco31I	GGTCTC	2 cut(s)	95, 390
EcoT14I	CCWWGG	2 cut(s)	145, 434
EcoT38I	GRGCYC	1 cut(s)	20
ErhI	CCWWGG	2 cut(s)	145, 434
Esp3I	CGTCTC	1 cut(s)	86
FaeI	CATG	1 cut(s)	136
FaiI	YATR	7 cut(s)	134, 156, 210, 449, 459, 531, 632
FalI	AAGNNNNNCTT	2 cut(s)	155, 187
FatI	CATG	1 cut(s)	132
FblI	GTMKAC	1 cut(s)	489
Fnu4HI	GCNGC	8 cut(s)	42, 73, 89, 179, 252, 281, 290, 519
FriOI	GRGCYC	1 cut(s)	20
Fsp4HI	GCNGC	8 cut(s)	42, 73, 89, 179, 252, 281, 290, 519
FspI	TGCGCA	2 cut(s)	137, 279
GlaI	GCGC	6 cut(s)	96, 137, 207, 224, 279, 299
GluI	GCNGC	8 cut(s)	42, 73, 89, 179, 252, 281, 290, 519
GsaI	CCCAGC	1 cut(s)	289
HaeII	RGCGCY	1 cut(s)	226
HaeIII	GGCC	1 cut(s)	337
HapII	CCGG	3 cut(s)	27, 85, 338
HgaI	GACGC	3 cut(s)	68, 184, 278
HhaI	GCGC	6 cut(s)	97, 138, 208, 225, 280, 300
Hin1II	CATG	1 cut(s)	136
Hin6I	GCGC	6 cut(s)	95, 136, 206, 223, 278, 298
HinP1I	GCGC	6 cut(s)	95, 136, 206, 223, 278, 298
HincII	GTYRAC	1 cut(s)	490
HindII	GTYRAC	1 cut(s)	490
HindIII	AAGCTT	1 cut(s)	164
HinfI	GANTC	2 cut(s)	605, 626
HpaII	CCGG	3 cut(s)	27, 85, 338
HphI	GGTGA	1 cut(s)	134
Hpy166II	GTNNAC	2 cut(s)	490, 618
Hpy188I	TCNGA	1 cut(s)	231
Hpy188III	TCNNGA	4 cut(s)	257, 397, 410, 602
Hpy8I	GTNNAC	2 cut(s)	490, 618
HpyAV	CCTTC	3 cut(s)	259, 636, 644
HpyCH4III	ACNGT	1 cut(s)	322
HpyCH4V	TGCA	3 cut(s)	50, 181, 518
HpyF3I	CTNAG	2 cut(s)	411, 473
Hsp92II	CATG	1 cut(s)	136
HspAI	GCGC	6 cut(s)	95, 136, 206, 223, 278, 298
Kzo9I	GATC	4 cut(s)	109, 121, 564, 598
LmnI	GCTCC	2 cut(s)	38, 277
Lsp1109I	GCAGC	4 cut(s)	165, 238, 292, 530
LweI	GCATC	1 cut(s)	448
MaeIII	GTNAC	1 cut(s)	349
MalI	GATC	4 cut(s)	111, 123, 566, 600
MboI	GATC	4 cut(s)	109, 121, 564, 598
MboII	GAAGA	4 cut(s)	380, 385, 431, 500
MflI	RGATCY	2 cut(s)	121, 598
MhlI	GDGCHC	1 cut(s)	20
MluCI	AATT	2 cut(s)	235, 327
MlyI	GAGTC	2 cut(s)	599, 635
MnlI	CCTC	5 cut(s)	29, 55, 184, 253, 375
MspI	CCGG	3 cut(s)	27, 85, 338
MspR9I	CCNGG	2 cut(s)	27, 339
MvnI	CGCG	3 cut(s)	75, 95, 258
NciI	CCSGG	2 cut(s)	27, 339
NdeII	GATC	4 cut(s)	109, 121, 564, 598
NlaIII	CATG	1 cut(s)	136
NlaIV	GGNNCC	3 cut(s)	40, 552, 600
NmeAIII	GCCGAG	1 cut(s)	547
NmuCI	GTSAC	1 cut(s)	349
NruI	TCGCGA	1 cut(s)	258
NsbI	TGCGCA	2 cut(s)	137, 279
PcsI	WCGNNNNNNNCGW	2 cut(s)	63, 72
PkrI	GCNGC	8 cut(s)	43, 74, 90, 180, 253, 282, 291, 520
PleI	GAGTC	2 cut(s)	599, 634
PpsI	GAGTC	2 cut(s)	599, 634
PspFI	CCCAGC	1 cut(s)	285
PspN4I	GGNNCC	3 cut(s)	40, 552, 600
PsuI	RGATCY	2 cut(s)	121, 598
RruI	TCGCGA	1 cut(s)	258
RsaI	GTAC	1 cut(s)	500
RsaNI	GTAC	1 cut(s)	499
SalI	GTCGAC	1 cut(s)	488
SatI	GCNGC	8 cut(s)	42, 73, 89, 179, 252, 281, 290, 519
Sau3AI	GATC	4 cut(s)	109, 121, 564, 598
SchI	GAGTC	2 cut(s)	599, 635
ScrFI	CCNGG	2 cut(s)	27, 339
SduI	GDGCHC	1 cut(s)	20
SetI	ASST	8 cut(s)	147, 155, 168, 253, 306, 386, 487, 552
SfaNI	GCATC	1 cut(s)	448
SmlI	CTYRAG	1 cut(s)	98
SmoI	CTYRAG	1 cut(s)	98
Sse9I	AATT	2 cut(s)	235, 327
SsiI	CCGC	6 cut(s)	33, 42, 70, 73, 88, 290
StyD4I	CCNGG	2 cut(s)	25, 337
StyI	CCWWGG	2 cut(s)	145, 434
TaaI	ACNGT	1 cut(s)	322
TaqI	TCGA	5 cut(s)	66, 108, 346, 489, 567
TasI	AATT	2 cut(s)	235, 327
TauI	GCSGC	4 cut(s)	44, 75, 91, 292
TseFI	GTSAC	1 cut(s)	349
TseI	GCWGC	4 cut(s)	178, 251, 280, 518
Tsp45I	GTSAC	1 cut(s)	349
TspDTI	ATGAA	1 cut(s)	121
XmiI	GTMKAC	1 cut(s)	489

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