Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr14

Orthogroup ID

OG0004175

Physical Location & Seq

Genomic Coordinates Forward (+)

32350939 .. 32353500

Gene Structure 2562 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD14G1245600.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 531 bp

ATGTTCTTCCATATAGTGCTGGAGAGGAACATGCAGCTTCATCCTCGCCACTTTGGCCGCAATCTCCGTGAAAATCTCGTTTCCAAGCTCATGAAAGATGTCGAAGGCACTTGCAGTGGTCAACATGGATTTGTGGTTGCAATTACGGGCATAGAAAACATTGGGAAAGGGATGATTCGTGATGGGACAGGCTTCGTCTCATTCCCCATCAAGTACCAGTGTGTTGTTTTCAGACCATTCAAAGGAGAGATCTTAGAAGCTGTTGTTACCATGGTCAACAAGATGGGATTCTTTGCTGAGGCTGGTCCTGTTCAAATCTTTGTTTCGAACCACTTGATACCGGATGACATGGAGTTCCAGATTGGGGATATGCCAAACTATACAACATCAGATGGATCAGTTAAGATTCAGAAAGACAGCGAAGTGCGATTAAAGATAATTGGAACCCGAGTAGATGCTACTGAAATTTTCTGCATTGGCACCATAAAGGACGATTTCTTGGGTGTGATAAACGATCCTACGACTGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000291 GO:0000428 GO:0000932 GO:0000956 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003723 GO:0003727 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0006139 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006401 GO:0006402 GO:0006417 GO:0006446 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0016070 GO:0016071 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019439 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031329 GO:0031331 GO:0031369 GO:0031974 GO:0031981 GO:0032268 GO:0032270 GO:0032774 GO:0032991 GO:0034248 GO:0034250 GO:0034641 GO:0034645 GO:0034654 GO:0034655 GO:0035770 GO:0036464 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044248 GO:0044249 GO:0044260 GO:0044265 GO:0044270 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045727 GO:0045935 GO:0045948 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0051252 GO:0051254 GO:0055029 GO:0060211 GO:0060213 GO:0060255 GO:0061013 GO:0061014 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:1900151 GO:1900153 GO:1901360 GO:1901361 GO:1901362 GO:1901363 GO:1901575 GO:1901576 GO:1902494 GO:1903311 GO:1903313 GO:1990234 GO:1990904 GO:2000112

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169

Pfam Domains

Protein Families

S1 SHS2_Rpb7-N

Protein Analysis

177

Amino Acids

19.64

Weight (kDa)

5.94

Isoelectric Point (pI)

22.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHS2_Rpb7-N	PF03876	8 - 64	2.5e-15	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397
S1	PF00575	79 - 156	2.3e-14	S1 RNA binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004175)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G59180
fragaria_vesca	FvH4_2g24550 FvH4_6g26920 FvH4_6g26920 FvH4_6g26920
malus_domestica	MD06G1239600.v1.1 MD14G1245600.v1.1
prunus_persica	Prupe.4G244700_v2.0.a1 Prupe.5G243500_v2.0.a1
pyrus_communis	pycom06g21510 pycom14g20650
rosa_chinensis	RchiOBHm_Chr2g0128671 RchiOBHm_Chr6g0292371
rosa_laevigata	RLG00000012035 RLG00000019016
rosa_multiflora	Rmu_sc0001354.1_g000012 Rmu_sc0003465.1_g000052 Rmu_sc0005514.1_g000001 Rmu_sc0023058.1_g000002
rosa_roxburghii	Rroxscaffold_2G00115380 Rroxscaffold_2G00115880 Rroxscaffold_7G00175130
rosa_rugosa	Rorug06G0226000
rosa_samantha	Rh2AG333500 Rh2BG341100 Rh2CG320100 Rh2DG357800 Rh6AG339300 Rh6BG346600 Rh6CG353400 Rh6DG339400
rosa_wichuraiana	Rw2G026920 Rw6G029530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	479
AciI	CCGC	1 cut(s)	58
AclWI	GGATC	2 cut(s)	403, 509
AcoI	YGGCCR	1 cut(s)	55
AcsI	RAATTY	1 cut(s)	465
AfaI	GTAC	1 cut(s)	215
AfiI	CCNNNNNNNGG	2 cut(s)	242, 364
AgsI	TTSAA	2 cut(s)	241, 314
AluBI	AGCT	3 cut(s)	37, 88, 260
AluI	AGCT	3 cut(s)	37, 88, 260
Alw26I	GTCTC	1 cut(s)	202
AlwI	GGATC	2 cut(s)	403, 509
Ama87I	CYCGRG	1 cut(s)	447
AoxI	GGCC	1 cut(s)	55
ApeKI	GCWGC	1 cut(s)	34
ApoI	RAATTY	1 cut(s)	465
AspS9I	GGNCC	1 cut(s)	305
AsuII	TTCGAA	1 cut(s)	326
AvaI	CYCGRG	1 cut(s)	447
AvaII	GGWCC	1 cut(s)	305
BanI	GGYRCC	1 cut(s)	479
BbvCI	CCTCAGC	1 cut(s)	297
BbvI	GCAGC	1 cut(s)	46
BccI	CCATC	4 cut(s)	176, 215, 277, 386
BcoDI	GTCTC	1 cut(s)	202
BglI	GCCNNNNNGGC	1 cut(s)	54
BglII	AGATCT	1 cut(s)	249
BisI	GCNGC	2 cut(s)	35, 58
BlsI	GCNGC	2 cut(s)	36, 59
Bme18I	GGWCC	1 cut(s)	305
BmeT110I	CYCGRG	1 cut(s)	447
BmgT120I	GGNCC	1 cut(s)	305
BmiI	GGNNCC	2 cut(s)	445, 481
BmsI	GCATC	1 cut(s)	445
BpmI	CTGGAG	1 cut(s)	41
Bpu10I	CCTNAGC	1 cut(s)	297
Bpu14I	TTCGAA	1 cut(s)	326
BsaJI	CCNNGG	1 cut(s)	270
BsaWI	WCCGGW	1 cut(s)	340
Bsc4I	CCNNNNNNNGG	2 cut(s)	242, 364
Bse1I	ACTGG	1 cut(s)	217
BseDI	CCNNGG	1 cut(s)	270
BseGI	GGATG	3 cut(s)	40, 177, 349
BseLI	CCNNNNNNNGG	2 cut(s)	242, 364
BseMII	CTCAG	1 cut(s)	288
BseNI	ACTGG	1 cut(s)	217
BseXI	GCAGC	1 cut(s)	46
BshFI	GGCC	1 cut(s)	57
BshNI	GGYRCC	1 cut(s)	479
BsiHKCI	CYCGRG	1 cut(s)	447
BsiSI	CCGG	1 cut(s)	341
BslFI	GGGAC	1 cut(s)	199
BslI	CCNNNNNNNGG	2 cut(s)	242, 364
BsmAI	GTCTC	1 cut(s)	202
BsmBI	CGTCTC	1 cut(s)	202
BsmFI	GGGAC	1 cut(s)	199
BsnI	GGCC	1 cut(s)	57
BsoBI	CYCGRG	1 cut(s)	447
Bsp119I	TTCGAA	1 cut(s)	326
Bsp143I	GATC	3 cut(s)	249, 395, 514
Bsp19I	CCATGG	1 cut(s)	270
BspACI	CCGC	1 cut(s)	58
BspANI	GGCC	1 cut(s)	57
BspCNI	CTCAG	1 cut(s)	289
BspHI	TCATGA	1 cut(s)	90
BspLI	GGNNCC	2 cut(s)	445, 481
BspPI	GGATC	2 cut(s)	403, 509
BspT104I	TTCGAA	1 cut(s)	326
BspT107I	GGYRCC	1 cut(s)	479
BsrI	ACTGG	1 cut(s)	217
BssECI	CCNNGG	1 cut(s)	270
BssMI	GATC	3 cut(s)	249, 395, 514
BssT1I	CCWWGG	1 cut(s)	270
BstBI	TTCGAA	1 cut(s)	326
BstDEI	CTNAG	2 cut(s)	253, 297
BstDSI	CCRYGG	1 cut(s)	270
BstF5I	GGATG	3 cut(s)	40, 177, 349
BstKTI	GATC	3 cut(s)	252, 398, 517
BstMAI	GTCTC	1 cut(s)	202
BstMBI	GATC	3 cut(s)	249, 395, 514
BstMWI	GCNNNNNNNGC	1 cut(s)	54
BstNSI	RCATGY	1 cut(s)	34
BstV1I	GCAGC	1 cut(s)	46
BstX2I	RGATCY	1 cut(s)	249
BstYI	RGATCY	1 cut(s)	249
BsuRI	GGCC	1 cut(s)	57
BtgI	CCRYGG	1 cut(s)	270
BtsCI	GGATG	3 cut(s)	40, 177, 349
BtsI	GCAGTG	1 cut(s)	121
BtsIMutI	CAGTG	2 cut(s)	121, 224
CciI	TCATGA	1 cut(s)	90
Cfr13I	GGNCC	1 cut(s)	305
Csp6I	GTAC	1 cut(s)	214
CviAII	CATG	5 cut(s)	31, 91, 125, 271, 349
CviJI	RGCY	6 cut(s)	37, 57, 88, 192, 260, 302
CviKI_1	RGCY	6 cut(s)	37, 57, 88, 192, 260, 302
CviQI	GTAC	1 cut(s)	214
DdeI	CTNAG	2 cut(s)	253, 297
DpnI	GATC	3 cut(s)	251, 397, 516
DpnII	GATC	3 cut(s)	249, 395, 514
EaeI	YGGCCR	1 cut(s)	55
Eco130I	CCWWGG	1 cut(s)	270
Eco47I	GGWCC	1 cut(s)	305
Eco88I	CYCGRG	1 cut(s)	447
EcoT14I	CCWWGG	1 cut(s)	270
ErhI	CCWWGG	1 cut(s)	270
Esp3I	CGTCTC	1 cut(s)	202
FaeI	CATG	5 cut(s)	34, 94, 128, 274, 352
FaqI	GGGAC	1 cut(s)	199
FatI	CATG	5 cut(s)	30, 90, 124, 270, 348
Fnu4HI	GCNGC	2 cut(s)	35, 58
FokI	GGATG	3 cut(s)	27, 184, 356
Fsp4HI	GCNGC	2 cut(s)	35, 58
GluI	GCNGC	2 cut(s)	35, 58
GsuI	CTGGAG	1 cut(s)	41
HaeIII	GGCC	1 cut(s)	57
HapII	CCGG	1 cut(s)	341
Hin1II	CATG	5 cut(s)	34, 94, 128, 274, 352
HincII	GTYRAC	2 cut(s)	122, 277
HindII	GTYRAC	2 cut(s)	122, 277
HinfI	GANTC	3 cut(s)	175, 288, 406
HpaII	CCGG	1 cut(s)	341
Hpy166II	GTNNAC	2 cut(s)	122, 277
Hpy188I	TCNGA	3 cut(s)	233, 391, 411
Hpy188III	TCNNGA	3 cut(s)	91, 179, 358
Hpy8I	GTNNAC	2 cut(s)	122, 277
HpyAV	CCTTC	1 cut(s)	98
HpyCH4V	TGCA	4 cut(s)	34, 114, 140, 474
HpyF10VI	GCNNNNNNNGC	1 cut(s)	54
HpyF3I	CTNAG	2 cut(s)	253, 297
Hsp92II	CATG	5 cut(s)	34, 94, 128, 274, 352
Kzo9I	GATC	3 cut(s)	249, 395, 514
LpnPI	CCDG	7 cut(s)	5, 174, 230, 288, 321, 354, 371
Lsp1109I	GCAGC	1 cut(s)	46
LweI	GCATC	1 cut(s)	445
MaeIII	GTNAC	1 cut(s)	265
MalI	GATC	3 cut(s)	251, 397, 516
MboI	GATC	3 cut(s)	249, 395, 514
MflI	RGATCY	1 cut(s)	249
MluCI	AATT	3 cut(s)	141, 438, 465
MnlI	CCTC	3 cut(s)	18, 54, 292
MseI	TTAA	3 cut(s)	402, 431, 529
MspI	CCGG	1 cut(s)	341
MwoI	GCNNNNNNNGC	1 cut(s)	54
NcoI	CCATGG	1 cut(s)	270
NdeII	GATC	3 cut(s)	249, 395, 514
NlaIII	CATG	5 cut(s)	34, 94, 128, 274, 352
NlaIV	GGNNCC	2 cut(s)	445, 481
NspI	RCATGY	1 cut(s)	34
NspV	TTCGAA	1 cut(s)	326
PagI	TCATGA	1 cut(s)	90
PfeI	GAWTC	3 cut(s)	175, 288, 406
PkrI	GCNGC	2 cut(s)	36, 59
PspN4I	GGNNCC	2 cut(s)	445, 481
PspPI	GGNCC	1 cut(s)	305
PsuI	RGATCY	1 cut(s)	249
RsaI	GTAC	1 cut(s)	215
RsaNI	GTAC	1 cut(s)	214
SaqAI	TTAA	3 cut(s)	402, 431, 529
SatI	GCNGC	2 cut(s)	35, 58
Sau3AI	GATC	3 cut(s)	249, 395, 514
Sau96I	GGNCC	1 cut(s)	305
SetI	ASST	3 cut(s)	39, 90, 262
SfaNI	GCATC	1 cut(s)	445
SfuI	TTCGAA	1 cut(s)	326
SinI	GGWCC	1 cut(s)	305
Sse9I	AATT	3 cut(s)	141, 438, 465
SsiI	CCGC	1 cut(s)	58
StyI	CCWWGG	1 cut(s)	270
TaqI	TCGA	2 cut(s)	102, 326
TasI	AATT	3 cut(s)	141, 438, 465
TauI	GCSGC	1 cut(s)	60
TfiI	GAWTC	3 cut(s)	175, 288, 406
Tru1I	TTAA	3 cut(s)	402, 431, 529
Tru9I	TTAA	3 cut(s)	402, 431, 529
TscAI	CASTG	2 cut(s)	121, 224
TseI	GCWGC	1 cut(s)	34
TspDTI	ATGAA	2 cut(s)	29, 107
TspGWI	ACGGA	1 cut(s)	56
TspRI	CASTG	2 cut(s)	121, 224
VpaK11BI	GGWCC	1 cut(s)	305
XapI	RAATTY	1 cut(s)	465
XceI	RCATGY	1 cut(s)	34

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