MD03G1298900.v1.1

Replication protein A interacting middle

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0019180
Physical Location & Seq
Forward (+)
37486438 .. 37489939
3502 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1298900.v1.1.491

Sequence Viewer

Length: 786 bp
ATGGAGGGAGAAGCAGCCGCAGCAGAAGGGCGGCATCCTCTGAAACCCCATCCTCTTTTCAATAACCATAACAGCTGGAAACATAAGCTGAGAGAGAACTGTTACAAAAGGGTTCGAGAAGACAGAAGGCGGTTGCTTTGGAAGATGAGAATGCTGCCCACTCCACAAATTCTCAATCATATTCCAAATGGTTTGATCAAATCTGCATTCCAGGACATAGTTTCTGCTGAATTGGAAAAAATTAAGGAATCGTCATTGGATGAAAATGTAAGGAGTTCAACATCTGTCCCTGAGGCCAATGATGTGTTATGGGAATACGATGGCCTTACAAATATATACCAAGGTGATTGTGAAGAGATATTGTTAGCAATGCAAAGGATCTTTTATGAAGACCTGACTACTCATCCAACTAGAAAAGAAGAAACAGAAATATGTGTTGAAACATGGGAAGATGAAGAGGATGAGTATTTGTCCCAGGCAATTTATGAGCATATGCAACTGAATGACAAGCAGATGGACAGGGAGGAAGTTTGGTGCCCCGTCTGTAAGCACGGAGTACTACAAGAGAATTACAACCTAATATACTGCACTTTATGCAAAGTTCAGCTCAACAAAGCCAATGAGGTTAATTTGGGAATAATGCGGGGCAGGCTAGCAGAAGTTCACACAGAGCATCTTGATCGTGGCTGCAAACTGAAACCCAAGTTTTGCATCGAGACTAGATTTAATATAACTGCACTGTACGTTTTCTGTGCTGGTTGTAATACATTTGAGATTGTAATATAG
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

262

Amino Acids

30.6

Weight (kDa)

5.45

Isoelectric Point (pI)

47.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RPA_interact_N PF14766 18 - 50 3.3e-11 Replication protein A interacting N-terminal
RPA_interact_M PF14767 68 - 161 2.3e-24 Replication protein A interacting middle
RPA_interact_C PF14768 178 - 259 1.9e-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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Publication-ready
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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) 534
AciI CCGC 4 cut(s) 18, 31, 130, 643
AclWI GGATC 1 cut(s) 386
AcsI RAATTY 1 cut(s) 168
AfaI GTAC 2 cut(s) 558, 743
AgsI TTSAA 3 cut(s) 61, 279, 440
AjnI CCWGG 2 cut(s) 210, 474
AluBI AGCT 3 cut(s) 75, 88, 607
AluI AGCT 3 cut(s) 75, 88, 607
Alw26I GTCTC 1 cut(s) 710
AlwI GGATC 1 cut(s) 386
AoxI GGCC 2 cut(s) 294, 322
ApeKI GCWGC 4 cut(s) 14, 20, 154, 687
ApoI RAATTY 1 cut(s) 168
AsuHPI GGTGA 1 cut(s) 356
AsuNHI GCTAGC 1 cut(s) 652
AxyI CCTNAGG 1 cut(s) 291
BaeGI GKGCMC 1 cut(s) 539
BanI GGYRCC 1 cut(s) 534
BbsI GAAGAC 2 cut(s) 126, 396
BbvI GCAGC 4 cut(s) 26, 32, 141, 674
BccI CCATC 3 cut(s) 57, 314, 508
BcgI CGANNNNNNTGC 2 cut(s) 662, 696
BciT130I CCWGG 2 cut(s) 212, 476
BclI TGATCA 1 cut(s) 195
BcoDI GTCTC 1 cut(s) 710
BfaI CTAG 3 cut(s) 411, 653, 720
BisI GCNGC 6 cut(s) 15, 18, 21, 32, 155, 688
BlsI GCNGC 6 cut(s) 16, 19, 22, 33, 156, 689
BmcAI AGTACT 1 cut(s) 558
Bme1390I CCNGG 2 cut(s) 212, 476
BmiI GGNNCC 1 cut(s) 536
BmrFI CCNGG 2 cut(s) 212, 476
BmsI GCATC 3 cut(s) 43, 682, 720
BmtI GCTAGC 1 cut(s) 656
BpiI GAAGAC 2 cut(s) 126, 396
BsaJI CCNNGG 2 cut(s) 340, 474
Bse21I CCTNAGG 1 cut(s) 291
Bse3DI GCAATG 1 cut(s) 375
BseBI CCWGG 2 cut(s) 212, 476
BseDI CCNNGG 2 cut(s) 340, 474
BseGI GGATG 5 cut(s) 34, 49, 265, 403, 466
BseMI GCAATG 1 cut(s) 375
BseMII CTCAG 2 cut(s) 80, 282
BseSI GKGCMC 1 cut(s) 539
BseXI GCAGC 4 cut(s) 26, 32, 141, 674
BsgI GTGCAG 2 cut(s) 571, 720
BshFI GGCC 2 cut(s) 296, 324
BshNI GGYRCC 1 cut(s) 534
BslFI GGGAC 2 cut(s) 272, 457
BsmAI GTCTC 1 cut(s) 710
BsmFI GGGAC 2 cut(s) 272, 457
BsmI GAATGC 2 cut(s) 156, 206
BsnI GGCC 2 cut(s) 296, 324
Bsp1286I GDGCHC 1 cut(s) 539
Bsp143I GATC 3 cut(s) 195, 378, 679
BspACI CCGC 4 cut(s) 18, 31, 130, 643
BspANI GGCC 2 cut(s) 296, 324
BspCNI CTCAG 2 cut(s) 81, 283
BspLI GGNNCC 1 cut(s) 536
BspOI GCTAGC 1 cut(s) 656
BspPI GGATC 1 cut(s) 386
BspT107I GGYRCC 1 cut(s) 534
BsrDI GCAATG 1 cut(s) 375
BssECI CCNNGG 2 cut(s) 340, 474
BssMI GATC 3 cut(s) 195, 378, 679
BssT1I CCWWGG 1 cut(s) 340
Bst2UI CCWGG 2 cut(s) 212, 476
Bst4CI ACNGT 2 cut(s) 101, 741
Bst6I CTCTTC 2 cut(s) 348, 450
BstAPI GCANNNNNTGC 1 cut(s) 594
BstC8I GCNNGC 2 cut(s) 650, 654
BstDEI CTNAG 2 cut(s) 89, 291
BstF5I GGATG 5 cut(s) 34, 49, 265, 403, 466
BstKTI GATC 3 cut(s) 198, 381, 682
BstMAI GTCTC 1 cut(s) 710
BstMBI GATC 3 cut(s) 195, 378, 679
BstMWI GCNNNNNNNGC 3 cut(s) 20, 594, 649
BstNI CCWGG 2 cut(s) 212, 476
BstSCI CCNGG 2 cut(s) 210, 474
BstSLI GKGCMC 1 cut(s) 539
BstV1I GCAGC 4 cut(s) 26, 32, 141, 674
BstV2I GAAGAC 2 cut(s) 126, 396
BstX2I RGATCY 1 cut(s) 378
BstYI RGATCY 1 cut(s) 378
Bsu36I CCTNAGG 1 cut(s) 291
BsuRI GGCC 2 cut(s) 296, 324
BtsCI GGATG 5 cut(s) 34, 49, 265, 403, 466
BtsIMutI CAGTG 1 cut(s) 737
Cac8I GCNNGC 2 cut(s) 650, 654
Csp6I GTAC 2 cut(s) 557, 742
CviAII CATG 1 cut(s) 444
CviJI RGCY 9 cut(s) 17, 75, 88, 296, 324, 607, 617, 652, 687
CviKI_1 RGCY 9 cut(s) 17, 75, 88, 296, 324, 607, 617, 652, 687
CviQI GTAC 2 cut(s) 557, 742
DdeI CTNAG 2 cut(s) 89, 291
DpnI GATC 3 cut(s) 197, 380, 681
DpnII GATC 3 cut(s) 195, 378, 679
Eam1104I CTCTTC 2 cut(s) 348, 450
EarI CTCTTC 2 cut(s) 348, 450
Eco130I CCWWGG 1 cut(s) 340
Eco81I CCTNAGG 1 cut(s) 291
EcoRII CCWGG 2 cut(s) 210, 474
EcoT14I CCWWGG 1 cut(s) 340
ErhI CCWWGG 1 cut(s) 340
FaeI CATG 1 cut(s) 447
FaqI GGGAC 2 cut(s) 272, 457
FatI CATG 1 cut(s) 443
FauI CCCGC 1 cut(s) 636
FauNDI CATATG 1 cut(s) 492
FbaI TGATCA 1 cut(s) 195
Fnu4HI GCNGC 6 cut(s) 15, 18, 21, 32, 155, 688
FokI GGATG 5 cut(s) 21, 36, 272, 390, 473
Fsp4HI GCNGC 6 cut(s) 15, 18, 21, 32, 155, 688
FspBI CTAG 3 cut(s) 411, 653, 720
GluI GCNGC 6 cut(s) 15, 18, 21, 32, 155, 688
HaeIII GGCC 2 cut(s) 296, 324
Hin1II CATG 1 cut(s) 447
HinfI GANTC 1 cut(s) 248
HphI GGTGA 1 cut(s) 356
Hpy166II GTNNAC 1 cut(s) 664
Hpy188I TCNGA 1 cut(s) 42
Hpy188III TCNNGA 3 cut(s) 116, 677, 715
Hpy8I GTNNAC 1 cut(s) 664
HpyAV CCTTC 2 cut(s) 20, 120
HpyCH4III ACNGT 2 cut(s) 101, 741
HpyCH4IV ACGT 1 cut(s) 744
HpyCH4V TGCA 8 cut(s) 206, 373, 496, 588, 597, 690, 711, 737
HpyF10VI GCNNNNNNNGC 3 cut(s) 20, 594, 649
HpyF3I CTNAG 2 cut(s) 89, 291
HpySE526I ACGT 1 cut(s) 744
Hsp92II CATG 1 cut(s) 447
Ksp22I TGATCA 1 cut(s) 195
Kzo9I GATC 3 cut(s) 195, 378, 679
Lsp1109I GCAGC 4 cut(s) 26, 32, 141, 674
LweI GCATC 3 cut(s) 43, 682, 720
MaeI CTAG 3 cut(s) 411, 653, 720
MaeII ACGT 1 cut(s) 744
MaeIII GTNAC 1 cut(s) 101
MalI GATC 3 cut(s) 197, 380, 681
MboI GATC 3 cut(s) 195, 378, 679
MboII GAAGA 7 cut(s) 131, 154, 365, 401, 431, 461, 467
MflI RGATCY 1 cut(s) 378
MhlI GDGCHC 1 cut(s) 539
MluCI AATT 6 cut(s) 168, 230, 240, 480, 568, 628
MmeI TCCRAC 1 cut(s) 431
MnlI CCTC 6 cut(s) 48, 63, 286, 451, 517, 616
MseI TTAA 3 cut(s) 243, 627, 726
MspA1I CMGCKG 1 cut(s) 75
MspR9I CCNGG 2 cut(s) 212, 476
Mva1269I GAATGC 2 cut(s) 156, 206
MvaI CCWGG 2 cut(s) 212, 476
MwoI GCNNNNNNNGC 3 cut(s) 20, 594, 649
NdeI CATATG 1 cut(s) 492
NdeII GATC 3 cut(s) 195, 378, 679
NheI GCTAGC 1 cut(s) 652
NlaIII CATG 1 cut(s) 447
NlaIV GGNNCC 1 cut(s) 536
PctI GAATGC 2 cut(s) 156, 206
PfeI GAWTC 1 cut(s) 248
PfoI TCCNGGA 1 cut(s) 210
PkrI GCNGC 6 cut(s) 16, 19, 22, 33, 156, 689
Psp6I CCWGG 2 cut(s) 210, 474
PspGI CCWGG 2 cut(s) 210, 474
PspN4I GGNNCC 1 cut(s) 536
PsuI RGATCY 1 cut(s) 378
PvuII CAGCTG 1 cut(s) 75
RsaI GTAC 2 cut(s) 558, 743
RsaNI GTAC 2 cut(s) 557, 742
SaqAI TTAA 3 cut(s) 243, 627, 726
SatI GCNGC 6 cut(s) 15, 18, 21, 32, 155, 688
Sau3AI GATC 3 cut(s) 195, 378, 679
ScaI AGTACT 1 cut(s) 558
ScrFI CCNGG 2 cut(s) 212, 476
SduI GDGCHC 1 cut(s) 539
SetI ASST 8 cut(s) 77, 90, 346, 396, 579, 609, 627, 747
SfaNI GCATC 3 cut(s) 43, 682, 720
Sse9I AATT 6 cut(s) 168, 230, 240, 480, 568, 628
SsiI CCGC 4 cut(s) 18, 31, 130, 643
SspMI CTAG 3 cut(s) 411, 653, 720
StyD4I CCNGG 2 cut(s) 210, 474
StyI CCWWGG 1 cut(s) 340
TaaI ACNGT 2 cut(s) 101, 741
TaiI ACGT 1 cut(s) 747
TaqI TCGA 2 cut(s) 115, 714
TasI AATT 6 cut(s) 168, 230, 240, 480, 568, 628
TatI WGTACW 1 cut(s) 556
TauI GCSGC 2 cut(s) 20, 34
TfiI GAWTC 1 cut(s) 248
Tru1I TTAA 3 cut(s) 243, 627, 726
Tru9I TTAA 3 cut(s) 243, 627, 726
TscAI CASTG 1 cut(s) 744
TseI GCWGC 4 cut(s) 14, 20, 154, 687
TspDTI ATGAA 3 cut(s) 276, 402, 468
TspGWI ACGGA 1 cut(s) 567
TspRI CASTG 1 cut(s) 744
XapI RAATTY 1 cut(s) 168
XspI CTAG 3 cut(s) 411, 653, 720
ZrmI AGTACT 1 cut(s) 558
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.