MD04G1039000.v1.1

transcription, DNA-templated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0019765
Physical Location & Seq
Reverse (-)
4276411 .. 4277645
1235 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1039000.v1.1.491

Sequence Viewer

Length: 321 bp
ATGATTGCCGGTGCTTTGTCCAGGGTATCGAAGGAAGTTGGTGAAAGCTTTAGGGATTCTGTCAATGCATTTGACCCTCGTAAAGTTGCTGCTCAAGTGGAATCTGTGCTCTTTGATAACTGGGGTTTTCGCGATGAGTCGAATTATGATAAGTATGAAGCTATAATACACTTCCTGATCCTGGATGAAATCAAGGAGTTCCGCAGACAAGTCCTTGTTGAGGAGATTCCGCCGGAGATGCTGCTCAACATGTCCTTTGAACAGCTGCAGCAGAGGTACCCGCAGACGCGCAGTTATCTTGACTACATTGCTCCCAAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko05016 map05016
Pfam Domains
Protein Families
Med26 TFIIS_C TFIIS_M

Protein Analysis

107

Amino Acids

12.48

Weight (kDa)

4.86

Isoelectric Point (pI)

52.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIS_M PF07500 2 - 90 8e-08 Transcription factor S-II (TFIIS), central 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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Orthologous Genes (Group: OG0019765)

Species Orthologous Gene IDs
malus_domestica MD03G1264500.v1.1 MD03G1264600.v1.1 MD04G1039000.v1.1 MD11G1243600.v1.1 MD11G1250500.v1.1 MD11G1285500.v1.1
pyrus_communis pycom11g25300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 276
AccB1I GGYRCC 1 cut(s) 276
AccII CGCG 2 cut(s) 132, 289
AciI CCGC 3 cut(s) 202, 230, 281
AclWI GGATC 1 cut(s) 172
AfaI GTAC 1 cut(s) 278
AfiI CCNNNNNNNGG 2 cut(s) 181, 220
AflIII ACRYGT 1 cut(s) 249
AgsI TTSAA 1 cut(s) 260
AjnI CCWGG 2 cut(s) 20, 180
AluBI AGCT 3 cut(s) 48, 161, 265
AluI AGCT 3 cut(s) 48, 161, 265
Alw21I GWGCWC 1 cut(s) 111
AlwI GGATC 1 cut(s) 172
ApeKI GCWGC 4 cut(s) 89, 241, 265, 268
Asp718I GGTACC 1 cut(s) 276
AspLEI GCGC 1 cut(s) 291
AsuHPI GGTGA 1 cut(s) 53
BanI GGYRCC 1 cut(s) 276
BarI GAAGNNNNNNTAC 2 cut(s) 150, 182
Bbv12I GWGCWC 1 cut(s) 111
BbvI GCAGC 4 cut(s) 76, 228, 252, 280
BciT130I CCWGG 2 cut(s) 22, 182
BfmI CTRYAG 1 cut(s) 266
BisI GCNGC 4 cut(s) 90, 242, 266, 269
BlsI GCNGC 4 cut(s) 91, 243, 267, 270
Bme1390I CCNGG 2 cut(s) 22, 182
BmiI GGNNCC 1 cut(s) 278
BmrFI CCNGG 2 cut(s) 22, 182
BmrI ACTGGG 1 cut(s) 130
BmsI GCATC 1 cut(s) 228
BmuI ACTGGG 1 cut(s) 130
BpuEI CTTGAG 1 cut(s) 78
BsaJI CCNNGG 1 cut(s) 21
Bsc4I CCNNNNNNNGG 2 cut(s) 181, 220
Bse118I RCCGGY 1 cut(s) 8
Bse1I ACTGG 1 cut(s) 125
Bse3DI GCAATG 1 cut(s) 306
BseBI CCWGG 2 cut(s) 22, 182
BseDI CCNNGG 1 cut(s) 21
BseGI GGATG 1 cut(s) 190
BseLI CCNNNNNNNGG 2 cut(s) 181, 220
BseMI GCAATG 1 cut(s) 306
BseNI ACTGG 1 cut(s) 125
BseRI GAGGAG 1 cut(s) 236
BseXI GCAGC 4 cut(s) 76, 228, 252, 280
Bsh1236I CGCG 2 cut(s) 132, 289
BshNI GGYRCC 1 cut(s) 276
BsiHKAI GWGCWC 1 cut(s) 111
BsiSI CCGG 2 cut(s) 9, 233
BslI CCNNNNNNNGG 2 cut(s) 181, 220
Bsp1286I GDGCHC 1 cut(s) 111
Bsp143I GATC 1 cut(s) 177
Bsp68I TCGCGA 1 cut(s) 132
BspACI CCGC 3 cut(s) 202, 230, 281
BspFNI CGCG 2 cut(s) 132, 289
BspLI GGNNCC 1 cut(s) 278
BspMAI CTGCAG 1 cut(s) 270
BspPI GGATC 1 cut(s) 172
BspT107I GGYRCC 1 cut(s) 276
BsrDI GCAATG 1 cut(s) 306
BsrFI RCCGGY 1 cut(s) 8
BsrI ACTGG 1 cut(s) 125
BssAI RCCGGY 1 cut(s) 8
BssECI CCNNGG 1 cut(s) 21
BssMI GATC 1 cut(s) 177
Bst2UI CCWGG 2 cut(s) 22, 182
BstENI CCTNNNNNAGG 1 cut(s) 218
BstF5I GGATG 1 cut(s) 190
BstFNI CGCG 2 cut(s) 132, 289
BstHHI GCGC 1 cut(s) 291
BstKTI GATC 1 cut(s) 180
BstMBI GATC 1 cut(s) 177
BstMWI GCNNNNNNNGC 1 cut(s) 238
BstNI CCWGG 2 cut(s) 22, 182
BstNSI RCATGY 1 cut(s) 253
BstSCI CCNGG 2 cut(s) 20, 180
BstSFI CTRYAG 1 cut(s) 266
BstUI CGCG 2 cut(s) 132, 289
BstV1I GCAGC 4 cut(s) 76, 228, 252, 280
BtgZI GCGATG 1 cut(s) 147
BtsCI GGATG 1 cut(s) 190
BtuMI TCGCGA 1 cut(s) 132
CfoI GCGC 1 cut(s) 291
Cfr10I RCCGGY 1 cut(s) 8
CseI GACGC 1 cut(s) 295
Csp6I GTAC 1 cut(s) 277
CviAII CATG 1 cut(s) 250
CviJI RGCY 3 cut(s) 48, 161, 265
CviKI_1 RGCY 3 cut(s) 48, 161, 265
CviQI GTAC 1 cut(s) 277
DpnI GATC 1 cut(s) 179
DpnII GATC 1 cut(s) 177
EciI GGCGGA 1 cut(s) 219
EcoNI CCTNNNNNAGG 1 cut(s) 218
EcoRII CCWGG 2 cut(s) 20, 180
EcoT22I ATGCAT 1 cut(s) 70
FaeI CATG 1 cut(s) 253
FaiI YATR 4 cut(s) 147, 156, 164, 251
FatI CATG 1 cut(s) 249
FauI CCCGC 1 cut(s) 288
Fnu4HI GCNGC 4 cut(s) 90, 242, 266, 269
FokI GGATG 1 cut(s) 197
Fsp4HI GCNGC 4 cut(s) 90, 242, 266, 269
GlaI GCGC 1 cut(s) 290
GluI GCNGC 4 cut(s) 90, 242, 266, 269
HapII CCGG 2 cut(s) 9, 233
HgaI GACGC 1 cut(s) 295
HhaI GCGC 1 cut(s) 291
Hin1II CATG 1 cut(s) 253
Hin6I GCGC 1 cut(s) 289
HinP1I GCGC 1 cut(s) 289
HindIII AAGCTT 1 cut(s) 46
HinfI GANTC 4 cut(s) 56, 101, 137, 226
HpaII CCGG 2 cut(s) 9, 233
HphI GGTGA 1 cut(s) 53
Hpy188III TCNNGA 3 cut(s) 131, 175, 299
HpyAV CCTTC 1 cut(s) 25
HpyCH4V TGCA 2 cut(s) 68, 268
HpyF10VI GCNNNNNNNGC 1 cut(s) 238
Hsp92II CATG 1 cut(s) 253
HspAI GCGC 1 cut(s) 289
KpnI GGTACC 1 cut(s) 280
Kzo9I GATC 1 cut(s) 177
LmnI GCTCC 1 cut(s) 316
LpnPI CCDG 8 cut(s) 7, 22, 34, 106, 167, 188, 194, 246
Lsp1109I GCAGC 4 cut(s) 76, 228, 252, 280
LweI GCATC 1 cut(s) 228
MalI GATC 1 cut(s) 179
MboI GATC 1 cut(s) 177
MhlI GDGCHC 1 cut(s) 111
MluCI AATT 1 cut(s) 142
MlyI GAGTC 1 cut(s) 146
MnlI CCTC 3 cut(s) 87, 214, 267
Mph1103I ATGCAT 1 cut(s) 70
MspA1I CMGCKG 1 cut(s) 265
MspI CCGG 2 cut(s) 9, 233
MspR9I CCNGG 2 cut(s) 22, 182
MvaI CCWGG 2 cut(s) 22, 182
MvnI CGCG 2 cut(s) 132, 289
MwoI GCNNNNNNNGC 1 cut(s) 238
NdeII GATC 1 cut(s) 177
NlaIII CATG 1 cut(s) 253
NlaIV GGNNCC 1 cut(s) 278
NruI TCGCGA 1 cut(s) 132
NsiI ATGCAT 1 cut(s) 70
NspI RCATGY 1 cut(s) 253
PciI ACATGT 1 cut(s) 249
PfeI GAWTC 3 cut(s) 56, 101, 226
PfoI TCCNGGA 1 cut(s) 180
PkrI GCNGC 4 cut(s) 91, 243, 267, 270
PleI GAGTC 1 cut(s) 145
PpsI GAGTC 1 cut(s) 145
PscI ACATGT 1 cut(s) 249
Psp6I CCWGG 2 cut(s) 20, 180
PspGI CCWGG 2 cut(s) 20, 180
PspN4I GGNNCC 1 cut(s) 278
PstI CTGCAG 1 cut(s) 270
PvuII CAGCTG 1 cut(s) 265
RruI TCGCGA 1 cut(s) 132
RsaI GTAC 1 cut(s) 278
RsaNI GTAC 1 cut(s) 277
SatI GCNGC 4 cut(s) 90, 242, 266, 269
Sau3AI GATC 1 cut(s) 177
SchI GAGTC 1 cut(s) 146
ScrFI CCNGG 2 cut(s) 22, 182
SduI GDGCHC 1 cut(s) 111
SetI ASST 4 cut(s) 50, 163, 267, 278
SfaNI GCATC 1 cut(s) 228
SfcI CTRYAG 1 cut(s) 266
SmlI CTYRAG 1 cut(s) 93
SmoI CTYRAG 1 cut(s) 93
Sse9I AATT 1 cut(s) 142
SsiI CCGC 3 cut(s) 202, 230, 281
StyD4I CCNGG 2 cut(s) 20, 180
TaqI TCGA 2 cut(s) 29, 140
TasI AATT 1 cut(s) 142
TfiI GAWTC 3 cut(s) 56, 101, 226
TseI GCWGC 4 cut(s) 89, 241, 265, 268
TspDTI ATGAA 2 cut(s) 171, 201
XagI CCTNNNNNAGG 1 cut(s) 218
XceI RCATGY 1 cut(s) 253
Zsp2I ATGCAT 1 cut(s) 70
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.