MD16G1119000.v1.1

REF SRPP-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0011256
Physical Location & Seq
Forward (+)
8503714 .. 8505659
1946 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1119000.v1.1.491

Sequence Viewer

Length: 708 bp
ATGGCAACCGTCGATGATGGGGTACAGATCAACAGCAAGGAGAAGGAACTGAAGCATCTAGGGTTTCTGAGGGTGGCGGCGATTCAGACGCTGGTGTGCGTTTCGAGTCTGTACGGTTACGCTAAGCAGAACTCTGGGCCGCTCAGATCGACGGTCGGGACTGTGGAGGGCGCTGTCACCGCCGTCGTCGGTCCTGTTTACCAGAAGCTCAAGGGCATTCCTGACGATGTCCTCGCTTTTCTCGACACCAAGGTAGACGAAGCTACAGACAAGTTCGATAAGCATGCTCCACCTGTGGCTAAGCAGGTTGCGAGCCAAGCGCACTGTTTGATCCAGAAAGCAGCGGAAAAGGGACAGAAATTTGTAAGGGAGGCTCAAACTGGCGGTCCACGCTCAGCTATTCACTATGCAGCTACCGAGTACAAGAACTTTGTCTTGAACCAATCTGTGAAGCTGTGGGTCGGACTCAACACGTACCCTTCCATCCACAGAGTGGCACAGAAGGCTACACCAACCGCTGCTCGCTGGTCTGACAAATACAACCACACCGTAAAGGGCATGACCCGCAAAGGCTATGCCATCTTCGGCTATCTACCCCTTGTTCCGATCGATGAGATATCCAGTGCGGTTAAAAAGAGAGAGGTGGAGAAGAAAGAAGGTGCGGCTGCACACGTCGAGCACAAATCTGATTCTTCCGATTCTGATTGA

Protein Analysis

236

Amino Acids

25.58

Weight (kDa)

9.23

Isoelectric Point (pI)

30.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
REF PF05755 12 - 211 5.3e-84 Rubber elongation factor protein (REF)
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: OG0011256)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67360 AT1G67360
fragaria_vesca FvH4_4g23790
malus_domestica MD01G1161800.v1.1 MD08G1165600.v1.1 MD13G1118800.v1.1 MD16G1119000.v1.1
prunus_persica Prupe.1G226000_v2.0.a1
pyrus_communis pycom13g10370 pycom16g10190
rosa_chinensis RchiOBHm_Chr4g0430281
rosa_laevigata RLG00000006988
rosa_multiflora Rmu_sc0001089.1_g000026
rosa_roxburghii Rroxscaffold_5G00372080
rosa_rugosa Rorug04G0242400
rosa_samantha Rh4AG298800 Rh4BG305400 Rh4CG320900 Rh4DG302700
rosa_wichuraiana Rw4G025910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 295
AccB7I CCANNNNNTGG 1 cut(s) 493
AccBSI CCGCTC 1 cut(s) 142
AccI GTMKAC 1 cut(s) 255
AciI CCGC 9 cut(s) 77, 140, 180, 344, 384, 516, 565, 626, 662
AclWI GGATC 1 cut(s) 325
AcsI RAATTY 1 cut(s) 359
AcuI CTGAAG 1 cut(s) 71
AdeI CACNNNGTG 1 cut(s) 493
AfaI GTAC 4 cut(s) 24, 113, 422, 476
AfiI CCNNNNNNNGG 1 cut(s) 493
AflIII ACRYGT 2 cut(s) 471, 670
AgsI TTSAA 1 cut(s) 439
AjiI CACGTC 1 cut(s) 673
AluBI AGCT 5 cut(s) 208, 263, 398, 413, 454
AluI AGCT 5 cut(s) 208, 263, 398, 413, 454
Alw21I GWGCWC 1 cut(s) 681
AlwI GGATC 1 cut(s) 325
AlwNI CAGNNNCTG 1 cut(s) 91
AoxI GGCC 1 cut(s) 137
ApeKI GCWGC 4 cut(s) 341, 410, 518, 665
ApoI RAATTY 1 cut(s) 359
ArsI GACNNNNNNTTYG 2 cut(s) 370, 402
AspLEI GCGC 2 cut(s) 173, 322
AspS9I GGNCC 3 cut(s) 137, 191, 386
AsuHPI GGTGA 1 cut(s) 169
AvaII GGWCC 2 cut(s) 191, 386
Bbv12I GWGCWC 1 cut(s) 681
BbvI GCAGC 4 cut(s) 353, 422, 505, 652
BccI CCATC 3 cut(s) 11, 491, 587
BceAI ACGGC 1 cut(s) 167
BcgI CGANNNNNNTGC 2 cut(s) 266, 300
BfaI CTAG 1 cut(s) 59
BfmI CTRYAG 1 cut(s) 264
BfoI RGCGCY 1 cut(s) 174
BfuAI ACCTGC 1 cut(s) 295
BisI GCNGC 7 cut(s) 78, 140, 342, 411, 519, 663, 666
BlpI GCTNAGC 3 cut(s) 123, 300, 394
BlsI GCNGC 7 cut(s) 79, 141, 343, 412, 520, 664, 667
Bme18I GGWCC 2 cut(s) 191, 386
BmgBI CACGTC 1 cut(s) 673
BmgT120I GGNCC 3 cut(s) 137, 191, 386
BmsI GCATC 1 cut(s) 64
Bpu1102I GCTNAGC 3 cut(s) 123, 300, 394
BpuEI CTTGAG 1 cut(s) 194
Bsa29I ATCGAT 1 cut(s) 609
BsaAI YACGTR 1 cut(s) 474
BsaJI CCNNGG 1 cut(s) 249
Bsc4I CCNNNNNNNGG 1 cut(s) 493
Bse1I ACTGG 2 cut(s) 385, 621
BseCI ATCGAT 1 cut(s) 609
BseDI CCNNGG 1 cut(s) 249
BseGI GGATG 1 cut(s) 483
BseLI CCNNNNNNNGG 1 cut(s) 493
BseMII CTCAG 3 cut(s) 59, 157, 408
BseNI ACTGG 2 cut(s) 385, 621
BseXI GCAGC 4 cut(s) 353, 422, 505, 652
BsgI GTGCAG 1 cut(s) 651
Bsh1285I CGRYCG 2 cut(s) 156, 609
BshFI GGCC 1 cut(s) 139
BshVI ATCGAT 1 cut(s) 609
BsiEI CGRYCG 2 cut(s) 156, 609
BsiHKAI GWGCWC 1 cut(s) 681
BslFI GGGAC 2 cut(s) 172, 366
BslI CCNNNNNNNGG 1 cut(s) 493
BsmFI GGGAC 2 cut(s) 172, 366
BsmI GAATGC 1 cut(s) 216
BsnI GGCC 1 cut(s) 139
Bsp1286I GDGCHC 1 cut(s) 681
Bsp143I GATC 4 cut(s) 27, 146, 330, 606
Bsp1720I GCTNAGC 3 cut(s) 123, 300, 394
BspACI CCGC 9 cut(s) 77, 140, 180, 344, 384, 516, 565, 626, 662
BspANI GGCC 1 cut(s) 139
BspCNI CTCAG 3 cut(s) 60, 156, 407
BspDI ATCGAT 1 cut(s) 609
BspMI ACCTGC 1 cut(s) 295
BspPI GGATC 1 cut(s) 325
BsrBI CCGCTC 1 cut(s) 142
BsrI ACTGG 2 cut(s) 385, 621
BssECI CCNNGG 1 cut(s) 249
BssMI GATC 4 cut(s) 27, 146, 330, 606
BssT1I CCWWGG 1 cut(s) 249
Bst4CI ACNGT 6 cut(s) 10, 116, 154, 163, 326, 550
BstBAI YACGTR 1 cut(s) 474
BstC8I GCNNGC 3 cut(s) 285, 313, 523
BstDEI CTNAG 5 cut(s) 68, 123, 143, 300, 394
BstF5I GGATG 1 cut(s) 483
BstH2I RGCGCY 1 cut(s) 174
BstHHI GCGC 2 cut(s) 173, 322
BstKTI GATC 4 cut(s) 30, 149, 333, 609
BstMBI GATC 4 cut(s) 27, 146, 330, 606
BstMCI CGRYCG 2 cut(s) 156, 609
BstMWI GCNNNNNNNGC 5 cut(s) 179, 317, 390, 503, 564
BstNSI RCATGY 1 cut(s) 287
BstSFI CTRYAG 1 cut(s) 264
BstV1I GCAGC 4 cut(s) 353, 422, 505, 652
Bsu15I ATCGAT 1 cut(s) 609
BsuRI GGCC 1 cut(s) 139
BsuTUI ATCGAT 1 cut(s) 609
BtrI CACGTC 1 cut(s) 673
BtsCI GGATG 1 cut(s) 483
BtsIMutI CAGTG 2 cut(s) 322, 628
BveI ACCTGC 1 cut(s) 295
Cac8I GCNNGC 3 cut(s) 285, 313, 523
CaiI CAGNNNCTG 1 cut(s) 91
CfoI GCGC 2 cut(s) 173, 322
Cfr13I GGNCC 3 cut(s) 137, 191, 386
ClaI ATCGAT 1 cut(s) 609
CseI GACGC 1 cut(s) 97
Csp6I GTAC 4 cut(s) 23, 112, 421, 475
CviAII CATG 2 cut(s) 284, 559
CviQI GTAC 4 cut(s) 23, 112, 421, 475
DdeI CTNAG 5 cut(s) 68, 123, 143, 300, 394
DpnI GATC 4 cut(s) 29, 148, 332, 608
DpnII GATC 4 cut(s) 27, 146, 330, 606
DraIII CACNNNGTG 1 cut(s) 493
Eco130I CCWWGG 1 cut(s) 249
Eco32I GATATC 1 cut(s) 618
Eco47I GGWCC 2 cut(s) 191, 386
Eco57I CTGAAG 1 cut(s) 71
EcoRV GATATC 1 cut(s) 618
EcoT14I CCWWGG 1 cut(s) 249
ErhI CCWWGG 1 cut(s) 249
FaeI CATG 2 cut(s) 287, 562
FaiI YATR 4 cut(s) 285, 408, 560, 576
FaqI GGGAC 2 cut(s) 172, 366
FatI CATG 2 cut(s) 283, 558
FauI CCCGC 1 cut(s) 572
FblI GTMKAC 1 cut(s) 255
Fnu4HI GCNGC 7 cut(s) 78, 140, 342, 411, 519, 663, 666
FokI GGATG 1 cut(s) 470
Fsp4HI GCNGC 7 cut(s) 78, 140, 342, 411, 519, 663, 666
FspBI CTAG 1 cut(s) 59
GlaI GCGC 2 cut(s) 172, 321
GluI GCNGC 7 cut(s) 78, 140, 342, 411, 519, 663, 666
HaeII RGCGCY 1 cut(s) 174
HaeIII GGCC 1 cut(s) 139
HgaI GACGC 1 cut(s) 97
HhaI GCGC 2 cut(s) 173, 322
Hin1II CATG 2 cut(s) 287, 562
Hin6I GCGC 2 cut(s) 171, 320
HinP1I GCGC 2 cut(s) 171, 320
HinfI GANTC 5 cut(s) 82, 106, 465, 689, 698
HphI GGTGA 1 cut(s) 169
Hpy166II GTNNAC 3 cut(s) 199, 256, 389
Hpy188I TCNGA 9 cut(s) 69, 87, 146, 464, 532, 606, 688, 697, 703
Hpy188III TCNNGA 5 cut(s) 157, 221, 242, 334, 436
Hpy8I GTNNAC 3 cut(s) 199, 256, 389
Hpy99I CGWCG 5 cut(s) 14, 154, 188, 191, 677
HpyAV CCTTC 4 cut(s) 37, 489, 496, 650
HpyCH4III ACNGT 6 cut(s) 10, 116, 154, 163, 326, 550
HpyCH4IV ACGT 2 cut(s) 473, 672
HpyCH4V TGCA 2 cut(s) 410, 668
HpyF10VI GCNNNNNNNGC 5 cut(s) 179, 317, 390, 503, 564
HpyF3I CTNAG 5 cut(s) 68, 123, 143, 300, 394
HpySE526I ACGT 2 cut(s) 473, 672
Hsp92II CATG 2 cut(s) 287, 562
HspAI GCGC 2 cut(s) 171, 320
Kzo9I GATC 4 cut(s) 27, 146, 330, 606
LmnI GCTCC 1 cut(s) 292
Lsp1109I GCAGC 4 cut(s) 353, 422, 505, 652
LweI GCATC 1 cut(s) 64
MaeI CTAG 1 cut(s) 59
MaeII ACGT 2 cut(s) 473, 672
MaeIII GTNAC 2 cut(s) 116, 175
MalI GATC 4 cut(s) 29, 148, 332, 608
MbiI CCGCTC 1 cut(s) 142
MboI GATC 4 cut(s) 27, 146, 330, 606
MboII GAAGA 3 cut(s) 574, 661, 684
MhlI GDGCHC 1 cut(s) 681
MluCI AATT 1 cut(s) 359
MlyI GAGTC 2 cut(s) 115, 459
MmeI TCCRAC 1 cut(s) 442
MnlI CCTC 5 cut(s) 63, 160, 242, 364, 634
MseI TTAA 1 cut(s) 630
MspA1I CMGCKG 2 cut(s) 344, 518
Mva1269I GAATGC 1 cut(s) 216
MwoI GCNNNNNNNGC 5 cut(s) 179, 317, 390, 503, 564
NdeII GATC 4 cut(s) 27, 146, 330, 606
NlaIII CATG 2 cut(s) 287, 562
NmuCI GTSAC 1 cut(s) 175
NspI RCATGY 1 cut(s) 287
PaeI GCATGC 1 cut(s) 287
PcsI WCGNNNNNNNCGW 1 cut(s) 240
PctI GAATGC 1 cut(s) 216
PfeI GAWTC 3 cut(s) 82, 689, 698
PflFI GACNNNGTC 1 cut(s) 227
PflMI CCANNNNNTGG 1 cut(s) 493
PkrI GCNGC 7 cut(s) 79, 141, 343, 412, 520, 664, 667
Ple19I CGATCG 1 cut(s) 609
PleI GAGTC 2 cut(s) 114, 459
PpsI GAGTC 2 cut(s) 114, 459
Ppu21I YACGTR 1 cut(s) 474
PspPI GGNCC 3 cut(s) 137, 191, 386
PstNI CAGNNNCTG 1 cut(s) 91
PsyI GACNNNGTC 1 cut(s) 227
PvuI CGATCG 1 cut(s) 609
RsaI GTAC 4 cut(s) 24, 113, 422, 476
RsaNI GTAC 4 cut(s) 23, 112, 421, 475
SaqAI TTAA 1 cut(s) 630
SatI GCNGC 7 cut(s) 78, 140, 342, 411, 519, 663, 666
Sau3AI GATC 4 cut(s) 27, 146, 330, 606
Sau96I GGNCC 3 cut(s) 137, 191, 386
SchI GAGTC 2 cut(s) 115, 459
SduI GDGCHC 1 cut(s) 681
SfaNI GCATC 1 cut(s) 64
SfcI CTRYAG 1 cut(s) 264
SinI GGWCC 2 cut(s) 191, 386
SmlI CTYRAG 1 cut(s) 209
SmoI CTYRAG 1 cut(s) 209
SphI GCATGC 1 cut(s) 287
Sse9I AATT 1 cut(s) 359
SsiI CCGC 9 cut(s) 77, 140, 180, 344, 384, 516, 565, 626, 662
SspMI CTAG 1 cut(s) 59
StyI CCWWGG 1 cut(s) 249
TaaI ACNGT 6 cut(s) 10, 116, 154, 163, 326, 550
TaiI ACGT 2 cut(s) 476, 675
TaqI TCGA 7 cut(s) 12, 104, 149, 243, 276, 609, 675
TaqII GACCGA 1 cut(s) 179
TasI AATT 1 cut(s) 359
TatI WGTACW 1 cut(s) 420
TauI GCSGC 3 cut(s) 80, 142, 665
TfiI GAWTC 3 cut(s) 82, 689, 698
Tru1I TTAA 1 cut(s) 630
Tru9I TTAA 1 cut(s) 630
TscAI CASTG 2 cut(s) 329, 628
TseFI GTSAC 1 cut(s) 175
TseI GCWGC 4 cut(s) 341, 410, 518, 665
Tsp45I GTSAC 1 cut(s) 175
TspRI CASTG 2 cut(s) 329, 628
Tth111I GACNNNGTC 1 cut(s) 227
Van91I CCANNNNNTGG 1 cut(s) 493
VpaK11BI GGWCC 2 cut(s) 191, 386
XapI RAATTY 1 cut(s) 359
XceI RCATGY 1 cut(s) 287
XcmI CCANNNNNNNNNTGG 1 cut(s) 490
XmiI GTMKAC 1 cut(s) 255
XspI CTAG 1 cut(s) 59
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.