MD03G1236600.v1.1

RNA exonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0013135
Physical Location & Seq
Reverse (-)
32203382 .. 32206690
3309 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1236600.v1.1.491

Sequence Viewer

Length: 792 bp
ATGAAAAAGAACCCTAAACAGCAGCAGCAGCTTCAACTGAACCCCAACTGGGCTCAGCTCCAACAGAAGCTCAAGAGTCATGGCTCAACAACAACAACAATCTTAGGGAAGCGGAAAGAGAGGCTGGATGTGGAGTTGAATGACGATTCTCCATCTCGTATCAATCCTCTCGATCCAGTTAATGATGATTCCAGCTTGACAGATGAAGTAGCCATGGATTGTGAAATGGTTGGTGTCGGTCAAGGAAACAAAAGCGCCCTTGGACGCATTACGCTGGTAAATAAGTGGGGAAATGTTGTATATGATGAATTTGTTCGCCCAGTAGAACGTGTTGTTGATTTTCGTACTCAAATAAGTGGCATTCGTCCCCGAGACTTGAGAAAAGCAAAGGATTTTCGAATTGTTCAGAAAAAAGTGGCAGAGTTGATTAAAGGGAGAATTCTCGTGGGCCATGCATTGCGCAATGATCTTAAGGCATTGCTTTTAAGTCATCCCAAGGGGGACATCAGGGATACATTAGAGTATGAACCTTTTATGAGGGGGGAAGGGTCTAGAAGGGCGCTTCGGCATCTTGCAGCAGAGTTTCTTGATGTGAAGATCCAAAATGGAGAGCACTGCCCTATTGAAGATGCTCGTGCTGCAATGGTGCTTTATCAGAAAAACAGAAAAGCATGGGAAAAGATGGTTAAAGATCAAATTAAGCTCAAACAAAAGCAGAAAAAACGCAAGCCCAAAAAGAAGCGGACGGAGGGAGATGATTTGGAAACGGACCATGCAGAACCAGCATCCTAG
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
RNase_T

Protein Analysis

264

Amino Acids

30.14

Weight (kDa)

9.71

Isoelectric Point (pI)

34.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNase_T PF00929 70 - 217 5.9e-15 Exonuclease
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: OG0013135)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G15080
fragaria_vesca FvH4_3g19101 FvH4_3g19101 FvH4_3g19102
malus_domestica MD03G1236600.v1.1
prunus_persica Prupe.4G172700_v2.0.a1
pyrus_communis pycom03g18260
rosa_chinensis RchiOBHm_Chr5g0031901
rosa_laevigata RLG00000033357
rosa_multiflora Rmu_co8498065.1_g000001
rosa_roxburghii Rroxscaffold_1G00048360
rosa_rugosa Rorug05G0128900 Rorug05G0129000
rosa_samantha Rh5AG223000 Rh5BG223100 Rh5CG246300 Rh5DG228000
rosa_wichuraiana Rw5G020310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 461
AciI CCGC 2 cut(s) 112, 742
AclWI GGATC 2 cut(s) 167, 592
AcsI RAATTY 2 cut(s) 308, 438
AfaI GTAC 1 cut(s) 346
AfiI CCNNNNNNNGG 1 cut(s) 49
AflII CTTAAG 1 cut(s) 470
AflIII ACRYGT 1 cut(s) 328
AgsI TTSAA 3 cut(s) 35, 139, 626
AluBI AGCT 5 cut(s) 31, 58, 70, 195, 703
AluI AGCT 5 cut(s) 31, 58, 70, 195, 703
Alw21I GWGCWC 1 cut(s) 615
Alw26I GTCTC 1 cut(s) 366
AlwI GGATC 2 cut(s) 167, 592
Ama87I CYCGRG 1 cut(s) 369
AoxI GGCC 1 cut(s) 448
ApeKI GCWGC 5 cut(s) 22, 25, 28, 575, 638
ApoI RAATTY 2 cut(s) 308, 438
Asp700I GAANNNNTTC 1 cut(s) 312
AspLEI GCGC 3 cut(s) 257, 462, 562
AspS9I GGNCC 2 cut(s) 448, 769
AsuII TTCGAA 1 cut(s) 397
AvaI CYCGRG 1 cut(s) 369
AvaII GGWCC 1 cut(s) 769
BanII GRGCYC 1 cut(s) 55
BauI CACGAG 2 cut(s) 443, 633
Bbv12I GWGCWC 1 cut(s) 615
BbvI GCAGC 5 cut(s) 34, 37, 40, 587, 625
BccI CCATC 2 cut(s) 160, 676
BciVI GTATCC 1 cut(s) 505
BcoDI GTCTC 1 cut(s) 366
BfaI CTAG 2 cut(s) 552, 790
BfoI RGCGCY 2 cut(s) 258, 563
BfrI CTTAAG 1 cut(s) 470
BfuI GTATCC 1 cut(s) 505
BisI GCNGC 5 cut(s) 23, 26, 29, 576, 639
BlpI GCTNAGC 1 cut(s) 54
BlsI GCNGC 5 cut(s) 24, 27, 30, 577, 640
Bme18I GGWCC 1 cut(s) 769
BmeT110I CYCGRG 1 cut(s) 369
BmgT120I GGNCC 2 cut(s) 448, 769
BmrI ACTGGG 2 cut(s) 58, 314
BmsI GCATC 2 cut(s) 577, 619
BmuI ACTGGG 2 cut(s) 58, 314
Bpu1102I GCTNAGC 1 cut(s) 54
Bpu14I TTCGAA 1 cut(s) 397
BpuEI CTTGAG 2 cut(s) 56, 397
BsaJI CCNNGG 3 cut(s) 213, 259, 495
Bsc4I CCNNNNNNNGG 1 cut(s) 49
Bse1I ACTGG 3 cut(s) 53, 176, 320
Bse3DI GCAATG 4 cut(s) 455, 469, 476, 648
BseDI CCNNGG 3 cut(s) 213, 259, 495
BseGI GGATG 3 cut(s) 133, 490, 785
BseLI CCNNNNNNNGG 1 cut(s) 49
BseMI GCAATG 4 cut(s) 455, 469, 476, 648
BseMII CTCAG 1 cut(s) 68
BseNI ACTGG 3 cut(s) 53, 176, 320
BseXI GCAGC 5 cut(s) 34, 37, 40, 587, 625
BshFI GGCC 1 cut(s) 450
BsiHKAI GWGCWC 1 cut(s) 615
BsiHKCI CYCGRG 1 cut(s) 369
BslFI GGGAC 2 cut(s) 351, 515
BslI CCNNNNNNNGG 1 cut(s) 49
BsmAI GTCTC 1 cut(s) 366
BsmFI GGGAC 2 cut(s) 351, 515
BsmI GAATGC 1 cut(s) 360
BsnI GGCC 1 cut(s) 450
BsoBI CYCGRG 1 cut(s) 369
Bsp119I TTCGAA 1 cut(s) 397
Bsp1286I GDGCHC 2 cut(s) 55, 615
Bsp143I GATC 4 cut(s) 172, 466, 597, 691
Bsp1720I GCTNAGC 1 cut(s) 54
Bsp19I CCATGG 1 cut(s) 213
BspACI CCGC 2 cut(s) 112, 742
BspANI GGCC 1 cut(s) 450
BspCNI CTCAG 1 cut(s) 67
BspPI GGATC 2 cut(s) 167, 592
BspT104I TTCGAA 1 cut(s) 397
BspTI CTTAAG 1 cut(s) 470
BsrDI GCAATG 4 cut(s) 455, 469, 476, 648
BsrI ACTGG 3 cut(s) 53, 176, 320
BssECI CCNNGG 3 cut(s) 213, 259, 495
BssMI GATC 4 cut(s) 172, 466, 597, 691
BssSI CACGAG 2 cut(s) 443, 633
BssT1I CCWWGG 3 cut(s) 213, 259, 495
Bst2BI CACGAG 2 cut(s) 443, 633
BstAFI CTTAAG 1 cut(s) 470
BstBI TTCGAA 1 cut(s) 397
BstC8I GCNNGC 1 cut(s) 728
BstDEI CTNAG 2 cut(s) 54, 103
BstDSI CCRYGG 1 cut(s) 213
BstF5I GGATG 3 cut(s) 133, 490, 785
BstH2I RGCGCY 2 cut(s) 258, 563
BstHHI GCGC 3 cut(s) 257, 462, 562
BstKTI GATC 4 cut(s) 175, 469, 600, 694
BstMAI GTCTC 1 cut(s) 366
BstMBI GATC 4 cut(s) 172, 466, 597, 691
BstMWI GCNNNNNNNGC 3 cut(s) 28, 638, 782
BstV1I GCAGC 5 cut(s) 34, 37, 40, 587, 625
BstX2I RGATCY 1 cut(s) 597
BstYI RGATCY 1 cut(s) 597
BsuI GTATCC 1 cut(s) 505
BsuRI GGCC 1 cut(s) 450
BtgI CCRYGG 1 cut(s) 213
BtsCI GGATG 3 cut(s) 133, 490, 785
BtsI GCAGTG 1 cut(s) 613
BtsIMutI CAGTG 1 cut(s) 613
Cac8I GCNNGC 1 cut(s) 728
CfoI GCGC 3 cut(s) 257, 462, 562
Cfr13I GGNCC 2 cut(s) 448, 769
CseI GACGC 1 cut(s) 273
Csp6I GTAC 1 cut(s) 345
CviAII CATG 5 cut(s) 80, 214, 452, 672, 773
CviQI GTAC 1 cut(s) 345
DdeI CTNAG 2 cut(s) 54, 103
DpnI GATC 4 cut(s) 174, 468, 599, 693
DpnII GATC 4 cut(s) 172, 466, 597, 691
Eco130I CCWWGG 3 cut(s) 213, 259, 495
Eco24I GRGCYC 1 cut(s) 55
Eco47I GGWCC 1 cut(s) 769
Eco88I CYCGRG 1 cut(s) 369
EcoRI GAATTC 1 cut(s) 438
EcoT14I CCWWGG 3 cut(s) 213, 259, 495
EcoT22I ATGCAT 1 cut(s) 457
EcoT38I GRGCYC 1 cut(s) 55
ErhI CCWWGG 3 cut(s) 213, 259, 495
FaeI CATG 5 cut(s) 83, 217, 455, 675, 776
FaiI YATR 9 cut(s) 81, 215, 301, 303, 453, 525, 536, 673, 774
FaqI GGGAC 2 cut(s) 351, 515
FatI CATG 5 cut(s) 79, 213, 451, 671, 772
Fnu4HI GCNGC 5 cut(s) 23, 26, 29, 576, 639
FokI GGATG 3 cut(s) 140, 477, 772
FriOI GRGCYC 1 cut(s) 55
Fsp4HI GCNGC 5 cut(s) 23, 26, 29, 576, 639
FspBI CTAG 2 cut(s) 552, 790
FspI TGCGCA 1 cut(s) 461
GlaI GCGC 3 cut(s) 256, 461, 561
GluI GCNGC 5 cut(s) 23, 26, 29, 576, 639
HaeII RGCGCY 2 cut(s) 258, 563
HaeIII GGCC 1 cut(s) 450
HgaI GACGC 1 cut(s) 273
HhaI GCGC 3 cut(s) 257, 462, 562
Hin1II CATG 5 cut(s) 83, 217, 455, 675, 776
Hin6I GCGC 3 cut(s) 255, 460, 560
HinP1I GCGC 3 cut(s) 255, 460, 560
HinfI GANTC 3 cut(s) 76, 146, 188
Hpy188I TCNGA 2 cut(s) 408, 657
Hpy188III TCNNGA 4 cut(s) 73, 170, 552, 587
HpyAV CCTTC 2 cut(s) 539, 549
HpyCH4IV ACGT 1 cut(s) 328
HpyCH4V TGCA 4 cut(s) 455, 575, 641, 776
HpyF10VI GCNNNNNNNGC 3 cut(s) 28, 638, 782
HpyF3I CTNAG 2 cut(s) 54, 103
HpySE526I ACGT 1 cut(s) 328
Hsp92II CATG 5 cut(s) 83, 217, 455, 675, 776
HspAI GCGC 3 cut(s) 255, 460, 560
Kzo9I GATC 4 cut(s) 172, 466, 597, 691
LmnI GCTCC 1 cut(s) 63
LpnPI CCDG 7 cut(s) 34, 110, 189, 205, 260, 333, 493
Lsp1109I GCAGC 5 cut(s) 34, 37, 40, 587, 625
LweI GCATC 2 cut(s) 577, 619
MaeI CTAG 2 cut(s) 552, 790
MaeII ACGT 1 cut(s) 328
MalI GATC 4 cut(s) 174, 468, 599, 693
MboI GATC 4 cut(s) 172, 466, 597, 691
MboII GAAGA 2 cut(s) 607, 638
MflI RGATCY 1 cut(s) 597
MhlI GDGCHC 2 cut(s) 55, 615
MluCI AATT 4 cut(s) 308, 399, 438, 696
MlyI GAGTC 1 cut(s) 85
MmeI TCCRAC 1 cut(s) 85
MnlI CCTC 4 cut(s) 114, 177, 531, 742
Mph1103I ATGCAT 1 cut(s) 457
MroXI GAANNNNTTC 1 cut(s) 312
MseI TTAA 6 cut(s) 180, 429, 471, 485, 687, 699
MspCI CTTAAG 1 cut(s) 470
Mva1269I GAATGC 1 cut(s) 360
MwoI GCNNNNNNNGC 3 cut(s) 28, 638, 782
NcoI CCATGG 1 cut(s) 213
NdeII GATC 4 cut(s) 172, 466, 597, 691
NlaIII CATG 5 cut(s) 83, 217, 455, 675, 776
NsbI TGCGCA 1 cut(s) 461
NsiI ATGCAT 1 cut(s) 457
NspV TTCGAA 1 cut(s) 397
PctI GAATGC 1 cut(s) 360
PdmI GAANNNNTTC 1 cut(s) 312
PfeI GAWTC 2 cut(s) 146, 188
PkrI GCNGC 5 cut(s) 24, 27, 30, 577, 640
PleI GAGTC 1 cut(s) 84
PpsI GAGTC 1 cut(s) 84
PspPI GGNCC 2 cut(s) 448, 769
PsuI RGATCY 1 cut(s) 597
RsaI GTAC 1 cut(s) 346
RsaNI GTAC 1 cut(s) 345
SaqAI TTAA 6 cut(s) 180, 429, 471, 485, 687, 699
SatI GCNGC 5 cut(s) 23, 26, 29, 576, 639
Sau3AI GATC 4 cut(s) 172, 466, 597, 691
Sau96I GGNCC 2 cut(s) 448, 769
SchI GAGTC 1 cut(s) 85
SduI GDGCHC 2 cut(s) 55, 615
SetI ASST 7 cut(s) 33, 60, 72, 197, 331, 532, 705
SfaNI GCATC 2 cut(s) 577, 619
SfuI TTCGAA 1 cut(s) 397
SinI GGWCC 1 cut(s) 769
SmlI CTYRAG 3 cut(s) 71, 376, 470
SmoI CTYRAG 3 cut(s) 71, 376, 470
Sse9I AATT 4 cut(s) 308, 399, 438, 696
SsiI CCGC 2 cut(s) 112, 742
SspMI CTAG 2 cut(s) 552, 790
StyI CCWWGG 3 cut(s) 213, 259, 495
TaiI ACGT 1 cut(s) 331
TaqI TCGA 2 cut(s) 171, 397
TaqII GACCGA 1 cut(s) 227
TasI AATT 4 cut(s) 308, 399, 438, 696
TfiI GAWTC 2 cut(s) 146, 188
Tru1I TTAA 6 cut(s) 180, 429, 471, 485, 687, 699
Tru9I TTAA 6 cut(s) 180, 429, 471, 485, 687, 699
TscAI CASTG 1 cut(s) 620
TseI GCWGC 5 cut(s) 22, 25, 28, 575, 638
TspDTI ATGAA 4 cut(s) 17, 219, 321, 540
TspGWI ACGGA 2 cut(s) 761, 782
TspRI CASTG 1 cut(s) 620
Vha464I CTTAAG 1 cut(s) 470
VpaK11BI GGWCC 1 cut(s) 769
XapI RAATTY 2 cut(s) 308, 438
XbaI TCTAGA 1 cut(s) 551
XmnI GAANNNNTTC 1 cut(s) 312
XspI CTAG 2 cut(s) 552, 790
Zsp2I ATGCAT 1 cut(s) 457
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.