Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr08

Orthogroup ID

OG0003669

Physical Location & Seq

Genomic Coordinates Forward (+)

31059484 .. 31061761

Gene Structure 2278 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD08G1246300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 708 bp

ATGTCACTTAATTTTACTCTTCACAGTGAACTGCAGAAACTTCATATGCAGTTTGTAATCAGTGGTGTTTTGACAGAATCTGAGTTCTGGGCAACTAGGAAGAAGTTGCTTGATGGAGAGAGCCATACAAAGCCAAAACAACGGGTTGGTTTTAAAAATTCAATGATTTTGGACACCAAACCTACAAGTGACGGTCGGATGAACAAGGTTACGTTTAATTTCACTCCAGAGATTAAATATCAGATCTTTGCTCTCAAACCGGCTGTTCACCAGGCATTTCTTGAACTAGTGCCCAGTAAGATGACAGCAAAAGACTTCTGGACAAAATATTTCAGAGCTGAATTCCTTCACAGTACAAAGAATGCTGCTGCAATTGCGGCAGAAGCTGCTGAGGATGAGGAACTGGCAATTTTTTTAAAGGAGGATGAAATATTGGCAAGGGAAGCTCATCAGAAGATTCGACAGGTTGATCCAACTTTGGATATGGAAGCTGACCAAGGGGATGATTATACACATCTTCCTGATCATGGGATCTTTCGTGATGGTAGCAAGGACATCACTGAACTACAGAATGAGCAATACAGGAGGACTTTATCACAAGACCTTAACAGGCAAGGGGCTGTTGTTCTTCAAGGCAGAACTGTTGATGGGGATTTAGAAGATCCAAATAATGTTGCAGAGGCACTTATGCGGTCAAGACAGGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000439 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005675 GO:0006139 GO:0006259 GO:0006281 GO:0006351 GO:0006355 GO:0006357 GO:0006360 GO:0006366 GO:0006464 GO:0006468 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016310 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019538 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032774 GO:0032806 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0046483 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070816 GO:0071704 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:1901360 GO:1901362 GO:1901564 GO:1901576 GO:1902494 GO:1902554 GO:1902911 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko03420 ko05203 map03022 map03420 map05203

Pfam Domains

Protein Families

BSD PH_TFIIH

Protein Analysis

236

Amino Acids

26.9

Weight (kDa)

5.53

Isoelectric Point (pI)

31.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
BSD	PF03909	71 - 121	4.5e-11	BSD domain

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: OG0003669)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55750 AT1G55750 AT1G55750 AT1G55750 AT1G55750 AT1G55750 AT3G61420 AT3G61420
fragaria_vesca	FvH4_5g28910 FvH4_5g28910 FvH4_5g28910 FvH4_5g28910 FvH4_5g28910 FvH4_5g28910 FvH4_5g28910 FvH4_6g25000
malus_domestica	MD08G1246300.v1.1 MD15G1441400.v1.1
prunus_persica	Prupe.1G583500_v2.0.a1 Prupe.1G583500_v2.0.a1 Prupe.1G583500_v2.0.a1 Prupe.1G583500_v2.0.a1
pyrus_communis	pycom08g21370 pycom15g38940
rosa_chinensis	RchiOBHm_Chr7g0221221
rosa_laevigata	RLG00000002169
rosa_multiflora	Rmu_sc0000324.1_g000015
rosa_roxburghii	Rroxscaffold_3G00238550
rosa_rugosa	Rorug07G0201400 Rorug07G0201500
rosa_samantha	Rh7AG340400 Rh7BG331500 Rh7CG358300 Rh7DG339100
rosa_wichuraiana	Rw7G028970

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	377, 691
AclWI	GGATC	3 cut(s)	464, 539, 656
AcsI	RAATTY	2 cut(s)	157, 341
AfaI	GTAC	1 cut(s)	355
AfiI	CCNNNNNNNGG	1 cut(s)	527
AgsI	TTSAA	3 cut(s)	162, 284, 632
AhlI	ACTAGT	1 cut(s)	286
AjnI	CCWGG	1 cut(s)	270
AluBI	AGCT	4 cut(s)	338, 386, 446, 491
AluI	AGCT	4 cut(s)	338, 386, 446, 491
AlwI	GGATC	3 cut(s)	464, 539, 656
AlwNI	CAGNNNCTG	2 cut(s)	80, 386
ApeKI	GCWGC	3 cut(s)	365, 368, 386
ApoI	RAATTY	2 cut(s)	157, 341
Asp700I	GAANNNNTTC	1 cut(s)	345
AsuHPI	GGTGA	1 cut(s)	260
BaeGI	GKGCMC	1 cut(s)	294
BbvCI	CCTCAGC	1 cut(s)	390
BbvI	GCAGC	3 cut(s)	352, 355, 373
BccI	CCATC	3 cut(s)	107, 536, 641
BciT130I	CCWGG	1 cut(s)	272
BclI	TGATCA	1 cut(s)	523
BcuI	ACTAGT	1 cut(s)	286
BfaI	CTAG	2 cut(s)	96, 287
BfmI	CTRYAG	2 cut(s)	32, 566
BglII	AGATCT	1 cut(s)	243
BisI	GCNGC	4 cut(s)	366, 369, 378, 387
BlsI	GCNGC	4 cut(s)	367, 370, 379, 388
Bme1390I	CCNGG	1 cut(s)	272
BmrFI	CCNGG	1 cut(s)	272
BmrI	ACTGGG	1 cut(s)	288
BmuI	ACTGGG	1 cut(s)	288
BpmI	CTGGAG	1 cut(s)	210
Bpu10I	CCTNAGC	1 cut(s)	390
BsaJI	CCNNGG	1 cut(s)	496
Bsc4I	CCNNNNNNNGG	1 cut(s)	527
Bse118I	RCCGGY	1 cut(s)	259
Bse1I	ACTGG	2 cut(s)	294, 408
BseBI	CCWGG	1 cut(s)	272
BseDI	CCNNGG	1 cut(s)	496
BseGI	GGATG	4 cut(s)	204, 400, 430, 508
BseLI	CCNNNNNNNGG	1 cut(s)	527
BseMII	CTCAG	2 cut(s)	72, 381
BseNI	ACTGG	2 cut(s)	294, 408
BseSI	GKGCMC	1 cut(s)	294
BseXI	GCAGC	3 cut(s)	352, 355, 373
Bsh1285I	CGRYCG	1 cut(s)	196
BsiEI	CGRYCG	1 cut(s)	196
BsiSI	CCGG	1 cut(s)	260
BslI	CCNNNNNNNGG	1 cut(s)	527
BsmI	GAATGC	1 cut(s)	367
Bsp1286I	GDGCHC	1 cut(s)	294
Bsp143I	GATC	5 cut(s)	243, 469, 523, 531, 661
BspACI	CCGC	2 cut(s)	377, 691
BspCNI	CTCAG	2 cut(s)	73, 382
BspMAI	CTGCAG	1 cut(s)	36
BspPI	GGATC	3 cut(s)	464, 539, 656
BsrFI	RCCGGY	1 cut(s)	259
BsrI	ACTGG	2 cut(s)	294, 408
BssAI	RCCGGY	1 cut(s)	259
BssECI	CCNNGG	1 cut(s)	496
BssMI	GATC	5 cut(s)	243, 469, 523, 531, 661
BssT1I	CCWWGG	1 cut(s)	496
Bst2UI	CCWGG	1 cut(s)	272
Bst4CI	ACNGT	4 cut(s)	26, 194, 353, 643
Bst6I	CTCTTC	1 cut(s)	24
BstAPI	GCANNNNNTGC	1 cut(s)	386
BstDEI	CTNAG	2 cut(s)	81, 390
BstF5I	GGATG	4 cut(s)	204, 400, 430, 508
BstKTI	GATC	5 cut(s)	246, 472, 526, 534, 664
BstMBI	GATC	5 cut(s)	243, 469, 523, 531, 661
BstMCI	CGRYCG	1 cut(s)	196
BstMWI	GCNNNNNNNGC	5 cut(s)	374, 377, 383, 386, 443
BstNI	CCWGG	1 cut(s)	272
BstSCI	CCNGG	1 cut(s)	270
BstSFI	CTRYAG	2 cut(s)	32, 566
BstSLI	GKGCMC	1 cut(s)	294
BstV1I	GCAGC	3 cut(s)	352, 355, 373
BstX2I	RGATCY	3 cut(s)	243, 531, 661
BstYI	RGATCY	3 cut(s)	243, 531, 661
BtsCI	GGATG	4 cut(s)	204, 400, 430, 508
BtsIMutI	CAGTG	3 cut(s)	31, 67, 558
CaiI	CAGNNNCTG	2 cut(s)	80, 386
Cfr10I	RCCGGY	1 cut(s)	259
Csp6I	GTAC	1 cut(s)	354
CviAII	CATG	1 cut(s)	527
CviJI	RGCY	8 cut(s)	123, 133, 263, 338, 386, 446, 491, 620
CviKI_1	RGCY	8 cut(s)	123, 133, 263, 338, 386, 446, 491, 620
CviQI	GTAC	1 cut(s)	354
DdeI	CTNAG	2 cut(s)	81, 390
DpnI	GATC	5 cut(s)	245, 471, 525, 533, 663
DpnII	GATC	5 cut(s)	243, 469, 523, 531, 661
DraI	TTTAAA	2 cut(s)	154, 417
Eam1104I	CTCTTC	1 cut(s)	24
EarI	CTCTTC	1 cut(s)	24
Eco130I	CCWWGG	1 cut(s)	496
EcoRI	GAATTC	1 cut(s)	341
EcoRII	CCWGG	1 cut(s)	270
EcoT14I	CCWWGG	1 cut(s)	496
ErhI	CCWWGG	1 cut(s)	496
FaeI	CATG	1 cut(s)	530
FaiI	YATR	7 cut(s)	45, 47, 126, 485, 510, 528, 689
FatI	CATG	1 cut(s)	526
FauNDI	CATATG	1 cut(s)	45
FbaI	TGATCA	1 cut(s)	523
Fnu4HI	GCNGC	4 cut(s)	366, 369, 378, 387
FokI	GGATG	4 cut(s)	211, 407, 437, 515
Fsp4HI	GCNGC	4 cut(s)	366, 369, 378, 387
FspBI	CTAG	2 cut(s)	96, 287
GluI	GCNGC	4 cut(s)	366, 369, 378, 387
GsuI	CTGGAG	1 cut(s)	210
HapII	CCGG	1 cut(s)	260
Hin1II	CATG	1 cut(s)	530
HinfI	GANTC	2 cut(s)	77, 457
HpaII	CCGG	1 cut(s)	260
HphI	GGTGA	1 cut(s)	260
Hpy166II	GTNNAC	2 cut(s)	29, 268
Hpy188I	TCNGA	5 cut(s)	82, 198, 243, 335, 453
Hpy188III	TCNNGA	6 cut(s)	227, 281, 319, 521, 539, 696
Hpy8I	GTNNAC	2 cut(s)	29, 268
HpyAV	CCTTC	1 cut(s)	356
HpyCH4III	ACNGT	4 cut(s)	26, 194, 353, 643
HpyCH4IV	ACGT	1 cut(s)	212
HpyCH4V	TGCA	4 cut(s)	34, 49, 371, 677
HpyF10VI	GCNNNNNNNGC	5 cut(s)	374, 377, 383, 386, 443
HpyF3I	CTNAG	2 cut(s)	81, 390
HpySE526I	ACGT	1 cut(s)	212
Hsp92II	CATG	1 cut(s)	530
Ksp22I	TGATCA	1 cut(s)	523
Kzo9I	GATC	5 cut(s)	243, 469, 523, 531, 661
Lsp1109I	GCAGC	3 cut(s)	352, 355, 373
MaeI	CTAG	2 cut(s)	96, 287
MaeII	ACGT	1 cut(s)	212
MaeIII	GTNAC	3 cut(s)	3, 188, 208
MalI	GATC	5 cut(s)	245, 471, 525, 533, 663
MboI	GATC	5 cut(s)	243, 469, 523, 531, 661
MboII	GAAGA	6 cut(s)	11, 112, 466, 509, 620, 671
MfeI	CAATTG	1 cut(s)	372
MflI	RGATCY	3 cut(s)	243, 531, 661
MhlI	GDGCHC	1 cut(s)	294
MluCI	AATT	6 cut(s)	10, 157, 217, 341, 372, 408
MmeI	TCCRAC	2 cut(s)	176, 497
MnlI	CCTC	5 cut(s)	385, 391, 415, 579, 673
MroXI	GAANNNNTTC	1 cut(s)	345
MseI	TTAA	6 cut(s)	9, 153, 216, 234, 416, 606
MspI	CCGG	1 cut(s)	260
MspR9I	CCNGG	1 cut(s)	272
MunI	CAATTG	1 cut(s)	372
Mva1269I	GAATGC	1 cut(s)	367
MvaI	CCWGG	1 cut(s)	272
MwoI	GCNNNNNNNGC	5 cut(s)	374, 377, 383, 386, 443
NdeI	CATATG	1 cut(s)	45
NdeII	GATC	5 cut(s)	243, 469, 523, 531, 661
NlaIII	CATG	1 cut(s)	530
NmuCI	GTSAC	2 cut(s)	3, 188
PctI	GAATGC	1 cut(s)	367
PdmI	GAANNNNTTC	1 cut(s)	345
PfeI	GAWTC	2 cut(s)	77, 457
PkrI	GCNGC	4 cut(s)	367, 370, 379, 388
Psp6I	CCWGG	1 cut(s)	270
PspGI	CCWGG	1 cut(s)	270
PstI	CTGCAG	1 cut(s)	36
PstNI	CAGNNNCTG	2 cut(s)	80, 386
PsuI	RGATCY	3 cut(s)	243, 531, 661
RsaI	GTAC	1 cut(s)	355
RsaNI	GTAC	1 cut(s)	354
SaqAI	TTAA	6 cut(s)	9, 153, 216, 234, 416, 606
SatI	GCNGC	4 cut(s)	366, 369, 378, 387
Sau3AI	GATC	5 cut(s)	243, 469, 523, 531, 661
ScrFI	CCNGG	1 cut(s)	272
SduI	GDGCHC	1 cut(s)	294
SetI	ASST	9 cut(s)	184, 210, 215, 340, 388, 448, 468, 493, 606
SfcI	CTRYAG	2 cut(s)	32, 566
SpeI	ACTAGT	1 cut(s)	286
Sse9I	AATT	6 cut(s)	10, 157, 217, 341, 372, 408
SsiI	CCGC	2 cut(s)	377, 691
SspI	AATATT	2 cut(s)	329, 432
SspMI	CTAG	2 cut(s)	96, 287
StyD4I	CCNGG	1 cut(s)	270
StyI	CCWWGG	1 cut(s)	496
TaaI	ACNGT	4 cut(s)	26, 194, 353, 643
TaiI	ACGT	1 cut(s)	215
TaqI	TCGA	1 cut(s)	460
TasI	AATT	6 cut(s)	10, 157, 217, 341, 372, 408
TatI	WGTACW	1 cut(s)	353
TauI	GCSGC	1 cut(s)	380
TfiI	GAWTC	2 cut(s)	77, 457
Tru1I	TTAA	6 cut(s)	9, 153, 216, 234, 416, 606
Tru9I	TTAA	6 cut(s)	9, 153, 216, 234, 416, 606
TscAI	CASTG	3 cut(s)	31, 67, 565
TseFI	GTSAC	2 cut(s)	3, 188
TseI	GCWGC	3 cut(s)	365, 368, 386
Tsp45I	GTSAC	2 cut(s)	3, 188
TspDTI	ATGAA	3 cut(s)	32, 215, 441
TspRI	CASTG	3 cut(s)	31, 67, 565
XapI	RAATTY	2 cut(s)	157, 341
XmnI	GAANNNNTTC	1 cut(s)	345
XspI	CTAG	2 cut(s)	96, 287

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