MD11G1318200.v1.1

Replication protein A interacting middle

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0019180
Physical Location & Seq
Forward (+)
43016338 .. 43026584
10247 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1318200.v1.1.491

Sequence Viewer

Length: 795 bp
ATGGAGGGAGCAGCCGCAGCCGCAGCCGCAGCAGAAGGGCGGCATCCTCTCAAACCCCATCCTCGTTTCAATAACCGTAGCAGCTGGAAACATAAGCTGAGAGAGAACTGTTACAAAAGGGTTCGAGAAGACAGAATGCGGTTGCTTTGGAAGATGAGAATGCTGCCCACTCCACAAATTCTCAATCACATTCCAAATGATTTGATCAAATCTGCATTCCAGGACATAGTTTCTGCTGAATTGGAAAAAATTAAGGAATCGTCATTGGATGAAAATGTAAGGAGTTCAACATCTGTCCCTGAGGCCAATGATATGTTATGGGAATACGATGGCCTTACAAATGTATACCAAGGTGATTGTGAAGAGATATTGTTAGAAATGCAAAGGATCTTTTATGAAGACCTGACTATTCATCCAACTAGAAAAGAAGAAACAGAAATCTGTGCTGAAACATGGGAAGATGAAGAGGATGAGTATTTGTCCCAGGCAGTTTATGAGCATATGCAACTGAACGACAAGCAGATGCACAAGGAGGAAGTTTGGTGCCCTGTCTGTAAGCACGGAGTAATACAAGAGAATTACAATCTAATATACTGTACTCTATGCAAAGTTCAGCTCAACAAAGGCAATGAGGTTAATTTGGAAATATTGCGGGGCAGGCTAGCAGAAGTTCACACACAGCATCTTGATCGTGGCTGCAAATTGAAACCCAAGTTTTGCATCGAGACTAGATTTAATATAACTGCACTGTACGTTTTCTGTGCTGGTTGTAATACATTTGAGATTGTAGTATAG
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
RPA_interact_C RPA_interact_M RPA_interact_N

Protein Analysis

265

Amino Acids

30.89

Weight (kDa)

5.54

Isoelectric Point (pI)

45.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RPA_interact_N PF14766 23 - 53 1.8e-10 Replication protein A interacting N-terminal
RPA_interact_M PF14767 71 - 164 4.3e-25 Replication protein A interacting middle
RPA_interact_C PF14768 181 - 262 1.4e-19 Replication protein A interacting C-terminal
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0019180)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G12760
malus_domestica MD03G1298900.v1.1 MD11G1318200.v1.1
prunus_persica Prupe.8G267300_v2.0.a1 Prupe.8G267300_v2.0.a1 Prupe.8G267300_v2.0.a1
pyrus_communis pycom03g23700 pycom11g27740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 543
AccI GTMKAC 1 cut(s) 345
AciI CCGC 6 cut(s) 15, 21, 27, 40, 139, 652
AclWI GGATC 1 cut(s) 395
AcsI RAATTY 1 cut(s) 177
AfaI GTAC 2 cut(s) 598, 752
AgsI TTSAA 3 cut(s) 70, 288, 706
AjnI CCWGG 2 cut(s) 219, 483
AluBI AGCT 3 cut(s) 84, 97, 616
AluI AGCT 3 cut(s) 84, 97, 616
Alw26I GTCTC 1 cut(s) 719
AlwI GGATC 1 cut(s) 395
AoxI GGCC 2 cut(s) 303, 331
ApeKI GCWGC 7 cut(s) 11, 17, 23, 29, 81, 163, 696
ApoI RAATTY 1 cut(s) 177
AsuHPI GGTGA 1 cut(s) 365
AsuNHI GCTAGC 1 cut(s) 661
AxyI CCTNAGG 1 cut(s) 300
BaeGI GKGCMC 1 cut(s) 548
BanI GGYRCC 1 cut(s) 543
BbsI GAAGAC 2 cut(s) 135, 405
BbvI GCAGC 7 cut(s) 23, 29, 35, 41, 93, 150, 683
BccI CCATC 2 cut(s) 66, 323
BcgI CGANNNNNNTGC 2 cut(s) 671, 705
BciT130I CCWGG 2 cut(s) 221, 485
BclI TGATCA 1 cut(s) 204
BcoDI GTCTC 1 cut(s) 719
BfaI CTAG 3 cut(s) 420, 662, 729
Bme1390I CCNGG 2 cut(s) 221, 485
BmiI GGNNCC 1 cut(s) 545
BmrFI CCNGG 2 cut(s) 221, 485
BmsI GCATC 4 cut(s) 52, 513, 691, 729
BmtI GCTAGC 1 cut(s) 665
BpiI GAAGAC 2 cut(s) 135, 405
BsaJI CCNNGG 2 cut(s) 349, 483
Bse21I CCTNAGG 1 cut(s) 300
Bse3DI GCAATG 1 cut(s) 634
BseBI CCWGG 2 cut(s) 221, 485
BseDI CCNNGG 2 cut(s) 349, 483
BseGI GGATG 5 cut(s) 43, 58, 274, 412, 475
BseMI GCAATG 1 cut(s) 634
BseMII CTCAG 2 cut(s) 89, 291
BseSI GKGCMC 1 cut(s) 548
BseXI GCAGC 7 cut(s) 23, 29, 35, 41, 93, 150, 683
BsgI GTGCAG 1 cut(s) 729
BshFI GGCC 2 cut(s) 305, 333
BshNI GGYRCC 1 cut(s) 543
BslFI GGGAC 2 cut(s) 281, 466
BsmAI GTCTC 1 cut(s) 719
BsmFI GGGAC 2 cut(s) 281, 466
BsmI GAATGC 3 cut(s) 141, 165, 215
BsnI GGCC 2 cut(s) 305, 333
Bsp1286I GDGCHC 1 cut(s) 548
Bsp143I GATC 3 cut(s) 204, 387, 688
BspACI CCGC 6 cut(s) 15, 21, 27, 40, 139, 652
BspANI GGCC 2 cut(s) 305, 333
BspCNI CTCAG 2 cut(s) 90, 292
BspLI GGNNCC 1 cut(s) 545
BspOI GCTAGC 1 cut(s) 665
BspPI GGATC 1 cut(s) 395
BspT107I GGYRCC 1 cut(s) 543
BsrDI GCAATG 1 cut(s) 634
BssECI CCNNGG 2 cut(s) 349, 483
BssMI GATC 3 cut(s) 204, 387, 688
BssNAI GTATAC 1 cut(s) 346
BssT1I CCWWGG 1 cut(s) 349
Bst1107I GTATAC 1 cut(s) 346
Bst2UI CCWGG 2 cut(s) 221, 485
Bst4CI ACNGT 4 cut(s) 77, 110, 596, 750
Bst6I CTCTTC 2 cut(s) 357, 459
BstC8I GCNNGC 2 cut(s) 659, 663
BstDEI CTNAG 2 cut(s) 98, 300
BstF5I GGATG 5 cut(s) 43, 58, 274, 412, 475
BstKTI GATC 3 cut(s) 207, 390, 691
BstMAI GTCTC 1 cut(s) 719
BstMBI GATC 3 cut(s) 204, 387, 688
BstMWI GCNNNNNNNGC 6 cut(s) 17, 20, 23, 26, 29, 658
BstNI CCWGG 2 cut(s) 221, 485
BstSCI CCNGG 2 cut(s) 219, 483
BstSLI GKGCMC 1 cut(s) 548
BstV1I GCAGC 7 cut(s) 23, 29, 35, 41, 93, 150, 683
BstV2I GAAGAC 2 cut(s) 135, 405
BstX2I RGATCY 1 cut(s) 387
BstYI RGATCY 1 cut(s) 387
BstZ17I GTATAC 1 cut(s) 346
Bsu36I CCTNAGG 1 cut(s) 300
BsuRI GGCC 2 cut(s) 305, 333
BtsCI GGATG 5 cut(s) 43, 58, 274, 412, 475
BtsIMutI CAGTG 1 cut(s) 746
Cac8I GCNNGC 2 cut(s) 659, 663
Csp6I GTAC 2 cut(s) 597, 751
CviAII CATG 1 cut(s) 453
CviQI GTAC 2 cut(s) 597, 751
DdeI CTNAG 2 cut(s) 98, 300
DpnI GATC 3 cut(s) 206, 389, 690
DpnII GATC 3 cut(s) 204, 387, 688
Eam1104I CTCTTC 2 cut(s) 357, 459
EarI CTCTTC 2 cut(s) 357, 459
Eco130I CCWWGG 1 cut(s) 349
Eco81I CCTNAGG 1 cut(s) 300
EcoRII CCWGG 2 cut(s) 219, 483
EcoT14I CCWWGG 1 cut(s) 349
ErhI CCWWGG 1 cut(s) 349
FaeI CATG 1 cut(s) 456
FaqI GGGAC 2 cut(s) 281, 466
FatI CATG 1 cut(s) 452
FauI CCCGC 1 cut(s) 645
FauNDI CATATG 1 cut(s) 501
FbaI TGATCA 1 cut(s) 204
FblI GTMKAC 1 cut(s) 345
FokI GGATG 5 cut(s) 30, 45, 281, 399, 482
FspBI CTAG 3 cut(s) 420, 662, 729
HaeIII GGCC 2 cut(s) 305, 333
Hin1II CATG 1 cut(s) 456
HinfI GANTC 1 cut(s) 257
HphI GGTGA 1 cut(s) 365
Hpy166II GTNNAC 2 cut(s) 346, 673
Hpy188III TCNNGA 3 cut(s) 125, 686, 724
Hpy8I GTNNAC 2 cut(s) 346, 673
HpyAV CCTTC 1 cut(s) 29
HpyCH4III ACNGT 4 cut(s) 77, 110, 596, 750
HpyCH4IV ACGT 1 cut(s) 753
HpyCH4V TGCA 8 cut(s) 215, 382, 505, 526, 606, 699, 720, 746
HpyF10VI GCNNNNNNNGC 6 cut(s) 17, 20, 23, 26, 29, 658
HpyF3I CTNAG 2 cut(s) 98, 300
HpySE526I ACGT 1 cut(s) 753
Hsp92II CATG 1 cut(s) 456
Ksp22I TGATCA 1 cut(s) 204
Kzo9I GATC 3 cut(s) 204, 387, 688
LmnI GCTCC 1 cut(s) 8
Lsp1109I GCAGC 7 cut(s) 23, 29, 35, 41, 93, 150, 683
LweI GCATC 4 cut(s) 52, 513, 691, 729
MaeI CTAG 3 cut(s) 420, 662, 729
MaeII ACGT 1 cut(s) 753
MaeIII GTNAC 1 cut(s) 110
MalI GATC 3 cut(s) 206, 389, 690
MboI GATC 3 cut(s) 204, 387, 688
MboII GAAGA 7 cut(s) 140, 163, 374, 410, 440, 470, 476
MflI RGATCY 1 cut(s) 387
MhlI GDGCHC 1 cut(s) 548
MluCI AATT 6 cut(s) 177, 239, 249, 577, 637, 701
MmeI TCCRAC 1 cut(s) 440
MnlI CCTC 6 cut(s) 57, 72, 295, 460, 526, 625
MseI TTAA 3 cut(s) 252, 636, 735
MspA1I CMGCKG 1 cut(s) 84
MspR9I CCNGG 2 cut(s) 221, 485
Mva1269I GAATGC 3 cut(s) 141, 165, 215
MvaI CCWGG 2 cut(s) 221, 485
MwoI GCNNNNNNNGC 6 cut(s) 17, 20, 23, 26, 29, 658
NdeI CATATG 1 cut(s) 501
NdeII GATC 3 cut(s) 204, 387, 688
NheI GCTAGC 1 cut(s) 661
NlaIII CATG 1 cut(s) 456
NlaIV GGNNCC 1 cut(s) 545
PctI GAATGC 3 cut(s) 141, 165, 215
PfeI GAWTC 1 cut(s) 257
PfoI TCCNGGA 1 cut(s) 219
Psp6I CCWGG 2 cut(s) 219, 483
PspGI CCWGG 2 cut(s) 219, 483
PspN4I GGNNCC 1 cut(s) 545
PsuI RGATCY 1 cut(s) 387
PvuII CAGCTG 1 cut(s) 84
RsaI GTAC 2 cut(s) 598, 752
RsaNI GTAC 2 cut(s) 597, 751
SaqAI TTAA 3 cut(s) 252, 636, 735
Sau3AI GATC 3 cut(s) 204, 387, 688
ScrFI CCNGG 2 cut(s) 221, 485
SduI GDGCHC 1 cut(s) 548
SetI ASST 7 cut(s) 86, 99, 355, 405, 618, 636, 756
SfaNI GCATC 4 cut(s) 52, 513, 691, 729
Sse9I AATT 6 cut(s) 177, 239, 249, 577, 637, 701
SsiI CCGC 6 cut(s) 15, 21, 27, 40, 139, 652
SspI AATATT 1 cut(s) 648
SspMI CTAG 3 cut(s) 420, 662, 729
StyD4I CCNGG 2 cut(s) 219, 483
StyI CCWWGG 1 cut(s) 349
TaaI ACNGT 4 cut(s) 77, 110, 596, 750
TaiI ACGT 1 cut(s) 756
TaqI TCGA 2 cut(s) 124, 723
TasI AATT 6 cut(s) 177, 239, 249, 577, 637, 701
TatI WGTACW 1 cut(s) 596
TauI GCSGC 4 cut(s) 17, 23, 29, 43
TfiI GAWTC 1 cut(s) 257
Tru1I TTAA 3 cut(s) 252, 636, 735
Tru9I TTAA 3 cut(s) 252, 636, 735
TscAI CASTG 1 cut(s) 753
TseI GCWGC 7 cut(s) 11, 17, 23, 29, 81, 163, 696
TspDTI ATGAA 4 cut(s) 285, 401, 411, 477
TspGWI ACGGA 1 cut(s) 576
TspRI CASTG 1 cut(s) 753
XapI RAATTY 1 cut(s) 177
XmiI GTMKAC 1 cut(s) 345
XspI CTAG 3 cut(s) 420, 662, 729
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.