MD13G1112600.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0001858
Physical Location & Seq
Reverse (-)
8175348 .. 8175917
570 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1112600.v1.1.491

Sequence Viewer

Length: 570 bp
ATGAGAAGGGTTGGGAAGTCAACAGGGAGGACCTCTCTCACTGGGTTTGCAGAAATTAAAGATGTAATTACTGTCTGCAAATGGGTTTCTGAGAATCTATCAGCTGACGGGATTTTATGGGTCAACCCACGACCACGTGGCCCAAAGCCAAGATCTACTGAAGGTGAAACTAGTTCAGAAAGTCTTGTTCTAAGTGGTACACATGACCATTACGAAGGTGTCATCGTCCACATCAACGAAAATGATCTCATGGATCCTGCCACCTTCCTTTCATTACTTACCTCTTCGATTGCCCATTGGAAGCTTCAGGGGAAAAAGGGTGTTTGGATCAAGTTGCCTATAGAACGAGTAAATCTTGTTGAAGTTGCAGTAAAGGAAATATTTTGGTACTATCATGCAAAGCCTATGTATTCGATGCTCGTGTATTGGATTCCCCAATCCTCTCACACCCTTCCTTGCAACACCACCCACCGTGTCGGAATTGGCACTTTCGTCCTCAACCTCAACCACATCGACATTACCGAAGGAACTTGGAGCGGCGGAAAGGCACTTTGGGGTAGTGGAGGATGA
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
Retrotrans_gag

Protein Analysis

190

Amino Acids

21.06

Weight (kDa)

8.54

Isoelectric Point (pI)

34.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Nudix_hydro PF18290 64 - 144 9e-26 Nudix hydrolase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 537
AciI CCGC 2 cut(s) 537, 540
AclWI GGATC 3 cut(s) 248, 261, 335
AcuI CTGAAG 2 cut(s) 180, 290
AcvI CACGTG 1 cut(s) 137
AfaI GTAC 2 cut(s) 199, 389
AgsI TTSAA 1 cut(s) 362
AhlI ACTAGT 1 cut(s) 170
AjuI GAANNNNNNNTTGG 2 cut(s) 535, 567
AluBI AGCT 2 cut(s) 104, 304
AluI AGCT 2 cut(s) 104, 304
AlwI GGATC 3 cut(s) 248, 261, 335
AoxI GGCC 1 cut(s) 139
AspS9I GGNCC 2 cut(s) 30, 140
AsuHPI GGTGA 1 cut(s) 176
AvaII GGWCC 1 cut(s) 30
BamHI GGATCC 1 cut(s) 253
BauI CACGAG 1 cut(s) 419
BbrPI CACGTG 1 cut(s) 137
BcuI ACTAGT 1 cut(s) 170
BfaI CTAG 1 cut(s) 171
BfmI CTRYAG 1 cut(s) 339
BglII AGATCT 1 cut(s) 152
BisI GCNGC 1 cut(s) 538
BlsI GCNGC 1 cut(s) 539
Bme18I GGWCC 1 cut(s) 30
BmgT120I GGNCC 2 cut(s) 30, 140
BmiI GGNNCC 1 cut(s) 255
BmrI ACTGGG 1 cut(s) 51
BmsI GCATC 1 cut(s) 405
BmuI ACTGGG 1 cut(s) 51
BplI GAGNNNNNCTC 2 cut(s) 19, 51
BsaAI YACGTR 1 cut(s) 137
Bse1I ACTGG 1 cut(s) 46
BseMII CTCAG 1 cut(s) 81
BseNI ACTGG 1 cut(s) 46
BshFI GGCC 1 cut(s) 141
BsnI GGCC 1 cut(s) 141
Bsp143I GATC 4 cut(s) 152, 244, 253, 327
BspACI CCGC 2 cut(s) 537, 540
BspANI GGCC 1 cut(s) 141
BspCNI CTCAG 1 cut(s) 82
BspLI GGNNCC 1 cut(s) 255
BspPI GGATC 3 cut(s) 248, 261, 335
BsrBI CCGCTC 1 cut(s) 537
BsrI ACTGG 1 cut(s) 46
BssMI GATC 4 cut(s) 152, 244, 253, 327
BssSI CACGAG 1 cut(s) 419
Bst2BI CACGAG 1 cut(s) 419
Bst4CI ACNGT 2 cut(s) 73, 473
Bst6I CTCTTC 1 cut(s) 289
BstBAI YACGTR 1 cut(s) 137
BstDEI CTNAG 2 cut(s) 90, 191
BstKTI GATC 4 cut(s) 155, 247, 256, 330
BstMBI GATC 4 cut(s) 152, 244, 253, 327
BstSFI CTRYAG 1 cut(s) 339
BstX2I RGATCY 2 cut(s) 152, 253
BstYI RGATCY 2 cut(s) 152, 253
BsuRI GGCC 1 cut(s) 141
BtsIMutI CAGTG 1 cut(s) 39
Cfr13I GGNCC 2 cut(s) 30, 140
Csp6I GTAC 2 cut(s) 198, 388
CviAII CATG 3 cut(s) 203, 250, 395
CviJI RGCY 5 cut(s) 104, 141, 148, 304, 403
CviKI_1 RGCY 5 cut(s) 104, 141, 148, 304, 403
CviQI GTAC 2 cut(s) 198, 388
DdeI CTNAG 2 cut(s) 90, 191
DpnI GATC 4 cut(s) 154, 246, 255, 329
DpnII GATC 4 cut(s) 152, 244, 253, 327
Eam1104I CTCTTC 1 cut(s) 289
EarI CTCTTC 1 cut(s) 289
EciI GGCGGA 1 cut(s) 555
Eco47I GGWCC 1 cut(s) 30
Eco57I CTGAAG 2 cut(s) 180, 290
Eco72I CACGTG 1 cut(s) 137
EcoO109I RGGNCCY 1 cut(s) 30
FaeI CATG 3 cut(s) 206, 253, 398
FaiI YATR 6 cut(s) 118, 204, 251, 341, 396, 407
FatI CATG 3 cut(s) 202, 249, 394
Fnu4HI GCNGC 1 cut(s) 538
Fsp4HI GCNGC 1 cut(s) 538
FspBI CTAG 1 cut(s) 171
GluI GCNGC 1 cut(s) 538
HaeIII GGCC 1 cut(s) 141
Hin1II CATG 3 cut(s) 206, 253, 398
HincII GTYRAC 2 cut(s) 21, 124
HindII GTYRAC 2 cut(s) 21, 124
HindIII AAGCTT 1 cut(s) 302
HinfI GANTC 2 cut(s) 94, 430
HphI GGTGA 1 cut(s) 176
Hpy166II GTNNAC 4 cut(s) 21, 124, 200, 229
Hpy188I TCNGA 3 cut(s) 91, 178, 479
Hpy8I GTNNAC 4 cut(s) 21, 124, 200, 229
HpyAV CCTTC 5 cut(s) 155, 209, 274, 461, 518
HpyCH4III ACNGT 2 cut(s) 73, 473
HpyCH4IV ACGT 1 cut(s) 136
HpyCH4V TGCA 5 cut(s) 50, 78, 368, 398, 459
HpyF3I CTNAG 2 cut(s) 90, 191
HpySE526I ACGT 1 cut(s) 136
Hsp92II CATG 3 cut(s) 206, 253, 398
Kzo9I GATC 4 cut(s) 152, 244, 253, 327
LmnI GCTCC 1 cut(s) 534
LpnPI CCDG 4 cut(s) 9, 27, 270, 293
LweI GCATC 1 cut(s) 405
MaeI CTAG 1 cut(s) 171
MaeII ACGT 1 cut(s) 136
MalI GATC 4 cut(s) 154, 246, 255, 329
MbiI CCGCTC 1 cut(s) 537
MboI GATC 4 cut(s) 152, 244, 253, 327
MboII GAAGA 1 cut(s) 276
MflI RGATCY 2 cut(s) 152, 253
MluCI AATT 3 cut(s) 54, 66, 480
MmeI TCCRAC 1 cut(s) 457
MnlI CCTC 7 cut(s) 21, 43, 292, 451, 506, 512, 557
MseI TTAA 1 cut(s) 57
MspA1I CMGCKG 1 cut(s) 104
NdeII GATC 4 cut(s) 152, 244, 253, 327
NlaIII CATG 3 cut(s) 206, 253, 398
NlaIV GGNNCC 1 cut(s) 255
PcsI WCGNNNNNNNCGW 1 cut(s) 519
PfeI GAWTC 2 cut(s) 94, 430
PkrI GCNGC 1 cut(s) 539
PmaCI CACGTG 1 cut(s) 137
PmlI CACGTG 1 cut(s) 137
Ppu21I YACGTR 1 cut(s) 137
PpuMI RGGWCCY 1 cut(s) 30
Psp5II RGGWCCY 1 cut(s) 30
PspCI CACGTG 1 cut(s) 137
PspN4I GGNNCC 1 cut(s) 255
PspPI GGNCC 2 cut(s) 30, 140
PspPPI RGGWCCY 1 cut(s) 30
PsuI RGATCY 2 cut(s) 152, 253
PvuII CAGCTG 1 cut(s) 104
RsaI GTAC 2 cut(s) 199, 389
RsaNI GTAC 2 cut(s) 198, 388
SaqAI TTAA 1 cut(s) 57
SatI GCNGC 1 cut(s) 538
Sau3AI GATC 4 cut(s) 152, 244, 253, 327
Sau96I GGNCC 2 cut(s) 30, 140
SetI ASST 9 cut(s) 35, 106, 139, 166, 220, 266, 284, 306, 504
SfaNI GCATC 1 cut(s) 405
SfcI CTRYAG 1 cut(s) 339
SinI GGWCC 1 cut(s) 30
SpeI ACTAGT 1 cut(s) 170
Sse9I AATT 3 cut(s) 54, 66, 480
SsiI CCGC 2 cut(s) 537, 540
SspI AATATT 1 cut(s) 381
SspMI CTAG 1 cut(s) 171
TaaI ACNGT 2 cut(s) 73, 473
TaiI ACGT 1 cut(s) 139
TaqI TCGA 3 cut(s) 287, 413, 513
TasI AATT 3 cut(s) 54, 66, 480
TauI GCSGC 1 cut(s) 540
TfiI GAWTC 2 cut(s) 94, 430
Tru1I TTAA 1 cut(s) 57
Tru9I TTAA 1 cut(s) 57
TscAI CASTG 1 cut(s) 46
TspDTI ATGAA 1 cut(s) 261
TspRI CASTG 1 cut(s) 46
VpaK11BI GGWCC 1 cut(s) 30
XspI CTAG 1 cut(s) 171
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.