Rroxscaffold_5G00373810

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0002110
Physical Location & Seq
Reverse (-)
54918627 .. 54920509
1883 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00373810.1

Sequence Viewer

Length: 1872 bp
ATGGCTGAGGAGCAAATAAATTTTGAAGAGGAGGAATATGGAGGTGCTCAGAAGCTCCAATATCAGGGAAGTGGAGCCATATCTGCGCTTGCAGATGAAGAACCGATGGTTGAAGATGATGAGTATGATGATCTCTATGATGATGTTAATGTTGGGGAGGGTTTCCTGCAGATGCATCGATCTGAGGCACCAGTCCCTGCTAGTGGTGTTGGGAATGGAGGACTCCAAGCTCAGAAAACTGATGTTCCCGAACTAAGAGTTCAAGCCGGAAATGAAAATTCCGGGGTTTCAGTTGGAGGAAATTATTCTAGTGTTCCTGAACAGAAGGTTCAGCCACCAGTCGCTAACGTGCCTGAAACTCAAGTCAGGCATATGGGGTTTCAGGGGTCAACAACTATGCCCTCCAATGTTGGTGCTGATTCTTTGGAAATTACTGCAAAATTTGCTAACGAGCCTCTTCCATCAATGAATTCTGGCACCACTGGTCCTTCAGCTGTTACACAGGTGCCTGCTAATCAAATGAATATGAAGGTCAATCTTAATCGTCCAATGGCTAATGAAAACCAAATCCGTCCTCCAATTGAGAATGGTTCGGCCACGTTGTTTGTGGGAGATTTACATTGGTGGACAACTGATGCTGAACTGGAAAGTGTTTTATCTCAGTTTGGGAGGGTGAAGGAAATTAAGTTTTTTGATGAAAGAGCCAGTGGTAAATCCAAAGGTTATTGTCAGGTAGATTTTTATGATCCCGCGGCTGCCAGTGCATGCAAAGAGGGAATGGATGGTTATGTTTTCAATGGGAGAGCTTGTGTTGTGGCCTTTGCTACTTCACAAACTTTAAAGCAGATGGGAGCTAATTATGTGAACAAATCCCAAGGGCAGGTTCAGACTCAGCCCCAAGGGAGAAGGCCCATGAATGATGGTGCTGGGAGAGGGGGAGGCATGAATTTTCAAGGTGGAGACACGGGGAGAAATTTTGGGAGGGGTAATTGGGGGCGAGGTGGACAGGGAGTACCCAACAGAGGTCCTGGTGGACCAGGCCGGGGAAGAGGAGGGGCCATGGGTGCAAAGAACATGGTTGGGAATAATGCTGGGGTTGGAGCTGGTGCTAATGGAGGAGGCTATGGACAGGGCCTTGCAGGTCCTGGATTTGGTGGTCCTGTAGGAGGTATGATGAATGCACCTGGTATGATGGGTCCTGGGTTTGATCCAACATATATGGGTCGAGGAGGTGGTTACGGAGGGTTCCCTGGTCCTGGTTTTCCTGGAATGCTTCCTCAATTTCCTGGTGTTAATGCAATGGGACTTGCTGGGGTTGCTCCTCATGTAAACCCAGCTTTCTTTGGCAGGGGAATGGCAACGAATGGGATGGGGATGATGGGTTCTTCTGGAATGGAGGGGCATCATGCCCCTATGTGGAATGATCCAAGTATGGGTGGGTGGGGAGGAGAAGAACAGGATCGAAGAACTAGGGAGTCAAGCTATGGGGGTGATGATGGTGCTTCTGAGTATGGAAACTATGTAGAGGCAAATCATGAGAAATCAGCTAAGTCAAGTGCTGCCTCAAGGGAAAGAGAACGGGGATCTGAGCGTGAGTGGACAGGAACCTCTGAGAGGAGGCATCGTGATGAGAGGGAACAAGACTTGGACAGGTCTGAAAGGGAGCACCGGGAGCCCAGGTATAAAGAAGAAAAAGATAGTTACAGAGATCATCGTCGAAGAGAGCGTGACGTGGGTTATGATGATGACTGGGACAGAGGACAATCTTCTTCAAGACCTCGCAGTAGGTCCAAAGCAATGCCGGAAGATGATCATCGTTCTCGATCAAGGGATGTGGATTATGGGAAGAGGAGACGATTGCCATCTGAGTGA

Protein Analysis

623

Amino Acids

66.89

Weight (kDa)

5.41

Isoelectric Point (pI)

49.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 201 - 270 1.7e-14 RNA recognition motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 871, 1130
AccB1I GGYRCC 3 cut(s) 187, 476, 505
AccII CGCG 1 cut(s) 752
AciI CCGC 2 cut(s) 750, 752
AclWI GGATC 5 cut(s) 740, 1202, 1418, 1467, 1591
AcoI YGGCCR 1 cut(s) 594
AcsI RAATTY 6 cut(s) 19, 277, 440, 469, 946, 973
AcuI CTGAAG 1 cut(s) 474
AfaI GTAC 1 cut(s) 1014
AgsI TTSAA 6 cut(s) 26, 113, 263, 796, 953, 1773
AjiI CACGTC 1 cut(s) 1732
AjuI GAANNNNNNNTTGG 2 cut(s) 867, 899
AloI GAACNNNNNNTCC 2 cut(s) 1366, 1398
AluBI AGCT 9 cut(s) 55, 230, 494, 806, 854, 1103, 1337, 1482, 1547
AluI AGCT 9 cut(s) 55, 230, 494, 806, 854, 1103, 1337, 1482, 1547
Alw21I GWGCWC 2 cut(s) 49, 1668
Alw26I GTCTC 2 cut(s) 954, 1846
AlwI GGATC 5 cut(s) 740, 1202, 1418, 1467, 1591
AlwNI CAGNNNCTG 2 cut(s) 197, 1145
AoxI GGCC 6 cut(s) 594, 816, 908, 1039, 1056, 1132
ApeKI GCWGC 2 cut(s) 755, 1559
ApoI RAATTY 6 cut(s) 19, 277, 440, 469, 946, 973
Asp700I GAANNNNTTC 1 cut(s) 304
AspLEI GCGC 1 cut(s) 88
AsuC2I CCSGG 3 cut(s) 283, 1043, 1670
AsuHPI GGTGA 2 cut(s) 685, 1502
AvaII GGWCC 8 cut(s) 485, 1025, 1034, 1142, 1157, 1196, 1253, 1788
BanI GGYRCC 3 cut(s) 187, 476, 505
BanII GRGCYC 1 cut(s) 1677
Bbv12I GWGCWC 2 cut(s) 49, 1668
BbvCI CCTCAGC 1 cut(s) 6
BbvI GCAGC 2 cut(s) 742, 1546
BcgI CGANNNNNNTGC 2 cut(s) 158, 192
BclI TGATCA 1 cut(s) 1810
BcnI CCSGG 3 cut(s) 283, 1043, 1670
BcoDI GTCTC 2 cut(s) 954, 1846
BfaI CTAG 3 cut(s) 201, 309, 1470
BfmI CTRYAG 2 cut(s) 167, 1161
BfuAI ACCTGC 2 cut(s) 871, 1130
BisI GCNGC 3 cut(s) 753, 756, 1560
BlsI GCNGC 3 cut(s) 754, 757, 1561
Bme18I GGWCC 8 cut(s) 485, 1025, 1034, 1142, 1157, 1196, 1253, 1788
BmgBI CACGTC 1 cut(s) 1732
BmiI GGNNCC 9 cut(s) 76, 189, 478, 507, 1057, 1197, 1247, 1606, 1674
BmrI ACTGGG 1 cut(s) 1759
BmsI GCATC 5 cut(s) 162, 184, 625, 1411, 1630
BmuI ACTGGG 1 cut(s) 1759
Bpu10I CCTNAGC 1 cut(s) 6
BpuEI CTTGAG 2 cut(s) 345, 1549
BpuMI CCSGG 3 cut(s) 283, 1043, 1670
Bsa29I ATCGAT 1 cut(s) 178
BsaBI GATNNNNATC 2 cut(s) 1812, 1861
BsaJI CCNNGG 9 cut(s) 282, 750, 874, 898, 1042, 1059, 1199, 1249, 1676
BsaXI ACNNNNNCTCC 6 cut(s) 793, 823, 1609, 1639, 1664, 1694
Bse1I ACTGG 7 cut(s) 191, 338, 487, 648, 705, 759, 1754
Bse3DI GCAATG 2 cut(s) 1305, 1803
Bse8I GATNNNNATC 2 cut(s) 1812, 1861
BseCI ATCGAT 1 cut(s) 178
BseDI CCNNGG 9 cut(s) 282, 750, 874, 898, 1042, 1059, 1199, 1249, 1676
BseGI GGATG 4 cut(s) 787, 1374, 1380, 1837
BseJI GATNNNNATC 2 cut(s) 1812, 1861
BseMI GCAATG 2 cut(s) 1305, 1803
BseMII CTCAG 9 cut(s) 62, 174, 245, 674, 905, 1497, 1578, 1602, 1857
BseNI ACTGG 7 cut(s) 191, 338, 487, 648, 705, 759, 1754
BseRI GAGGAG 9 cut(s) 23, 44, 1065, 1131, 1242, 1311, 1461, 1630, 1864
BseXI GCAGC 2 cut(s) 742, 1546
BseYI CCCAGC 4 cut(s) 926, 1091, 1310, 1333
Bsh1236I CGCG 1 cut(s) 752
BshFI GGCC 6 cut(s) 596, 818, 910, 1041, 1058, 1134
BshNI GGYRCC 3 cut(s) 187, 476, 505
BshVI ATCGAT 1 cut(s) 178
BsiHKAI GWGCWC 2 cut(s) 49, 1668
BsiSI CCGG 5 cut(s) 267, 282, 1042, 1669, 1802
BslFI GGGAC 3 cut(s) 179, 1317, 1766
BsmAI GTCTC 2 cut(s) 954, 1846
BsmBI CGTCTC 1 cut(s) 1846
BsmFI GGGAC 3 cut(s) 179, 1317, 1766
BsmI GAATGC 2 cut(s) 1183, 1275
BsnI GGCC 6 cut(s) 596, 818, 910, 1041, 1058, 1134
Bsp1286I GDGCHC 3 cut(s) 49, 1668, 1677
Bsp19I CCATGG 1 cut(s) 1059
BspACI CCGC 2 cut(s) 750, 752
BspANI GGCC 6 cut(s) 596, 818, 910, 1041, 1058, 1134
BspCNI CTCAG 9 cut(s) 61, 175, 244, 673, 904, 1498, 1579, 1603, 1858
BspDI ATCGAT 1 cut(s) 178
BspFNI CGCG 1 cut(s) 752
BspHI TCATGA 1 cut(s) 1534
BspLI GGNNCC 9 cut(s) 76, 189, 478, 507, 1057, 1197, 1247, 1606, 1674
BspMAI CTGCAG 1 cut(s) 171
BspMI ACCTGC 2 cut(s) 871, 1130
BspPI GGATC 5 cut(s) 740, 1202, 1418, 1467, 1591
BspT107I GGYRCC 3 cut(s) 187, 476, 505
BsrDI GCAATG 2 cut(s) 1305, 1803
BsrI ACTGG 7 cut(s) 191, 338, 487, 648, 705, 759, 1754
BssECI CCNNGG 9 cut(s) 282, 750, 874, 898, 1042, 1059, 1199, 1249, 1676
BssT1I CCWWGG 3 cut(s) 874, 898, 1059
Bst6I CTCTTC 5 cut(s) 21, 462, 1042, 1714, 1841
BstAPI GCANNNNNTGC 1 cut(s) 443
BstC8I GCNNGC 3 cut(s) 90, 510, 766
BstDSI CCRYGG 2 cut(s) 750, 1059
BstENI CCTNNNNNAGG 2 cut(s) 1164, 1612
BstF5I GGATG 4 cut(s) 787, 1374, 1380, 1837
BstFNI CGCG 1 cut(s) 752
BstHHI GCGC 1 cut(s) 88
BstMAI GTCTC 2 cut(s) 954, 1846
BstMWI GCNNNNNNNGC 6 cut(s) 83, 443, 761, 1064, 1316, 1672
BstNSI RCATGY 1 cut(s) 768
BstSFI CTRYAG 2 cut(s) 167, 1161
BstUI CGCG 1 cut(s) 752
BstV1I GCAGC 2 cut(s) 742, 1546
BstX2I RGATCY 1 cut(s) 1583
BstYI RGATCY 1 cut(s) 1583
Bsu15I ATCGAT 1 cut(s) 178
BsuRI GGCC 6 cut(s) 596, 818, 910, 1041, 1058, 1134
BsuTUI ATCGAT 1 cut(s) 178
BtgI CCRYGG 2 cut(s) 750, 1059
BtrI CACGTC 1 cut(s) 1732
BtsCI GGATG 4 cut(s) 787, 1374, 1380, 1837
BtsIMutI CAGTG 3 cut(s) 480, 712, 766
BveI ACCTGC 2 cut(s) 871, 1130
Cac8I GCNNGC 3 cut(s) 90, 510, 766
CaiI CAGNNNCTG 2 cut(s) 197, 1145
CciI TCATGA 1 cut(s) 1534
CfoI GCGC 1 cut(s) 88
Cfr42I CCGCGG 1 cut(s) 753
ClaI ATCGAT 1 cut(s) 178
CsiI ACCWGGT 1 cut(s) 1183
Csp6I GTAC 1 cut(s) 1013
CspCI CAANNNNNGTGG 4 cut(s) 586, 621, 1815, 1850
CviAII CATG 8 cut(s) 765, 913, 943, 1060, 1075, 1325, 1406, 1535
CviQI GTAC 1 cut(s) 1013
DraI TTTAAA 1 cut(s) 840
EaeI YGGCCR 1 cut(s) 594
Eam1104I CTCTTC 5 cut(s) 21, 462, 1042, 1714, 1841
EarI CTCTTC 5 cut(s) 21, 462, 1042, 1714, 1841
Eco130I CCWWGG 3 cut(s) 874, 898, 1059
Eco24I GRGCYC 1 cut(s) 1677
Eco47I GGWCC 8 cut(s) 485, 1025, 1034, 1142, 1157, 1196, 1253, 1788
Eco57I CTGAAG 1 cut(s) 474
EcoNI CCTNNNNNAGG 2 cut(s) 1164, 1612
EcoO109I RGGNCCY 4 cut(s) 1025, 1132, 1142, 1196
EcoRI GAATTC 1 cut(s) 469
EcoT14I CCWWGG 3 cut(s) 874, 898, 1059
EcoT22I ATGCAT 1 cut(s) 177
EcoT38I GRGCYC 1 cut(s) 1677
ErhI CCWWGG 3 cut(s) 874, 898, 1059
Esp3I CGTCTC 1 cut(s) 1846
FaeI CATG 8 cut(s) 768, 916, 946, 1063, 1078, 1328, 1409, 1538
FaqI GGGAC 3 cut(s) 179, 1317, 1766
FatI CATG 8 cut(s) 764, 912, 942, 1059, 1074, 1324, 1405, 1534
FauI CCCGC 1 cut(s) 757
FauNDI CATATG 1 cut(s) 372
FbaI TGATCA 1 cut(s) 1810
Fnu4HI GCNGC 3 cut(s) 753, 756, 1560
FokI GGATG 4 cut(s) 794, 1381, 1387, 1844
FriOI GRGCYC 1 cut(s) 1677
Fsp4HI GCNGC 3 cut(s) 753, 756, 1560
FspBI CTAG 3 cut(s) 201, 309, 1470
GlaI GCGC 1 cut(s) 87
GluI GCNGC 3 cut(s) 753, 756, 1560
GsaI CCCAGC 4 cut(s) 930, 1095, 1314, 1337
HaeIII GGCC 6 cut(s) 596, 818, 910, 1041, 1058, 1134
HapII CCGG 5 cut(s) 267, 282, 1042, 1669, 1802
HhaI GCGC 1 cut(s) 88
Hin1II CATG 8 cut(s) 768, 916, 946, 1063, 1078, 1328, 1409, 1538
Hin6I GCGC 1 cut(s) 86
HinP1I GCGC 1 cut(s) 86
HincII GTYRAC 1 cut(s) 390
HindII GTYRAC 1 cut(s) 390
HinfI GANTC 4 cut(s) 222, 419, 889, 1475
HpaII CCGG 5 cut(s) 267, 282, 1042, 1669, 1802
HphI GGTGA 2 cut(s) 685, 1502
Hpy166II GTNNAC 7 cut(s) 390, 627, 865, 1004, 1034, 1330, 1599
Hpy188I TCNGA 9 cut(s) 51, 184, 234, 888, 1507, 1588, 1612, 1657, 1867
Hpy188III TCNNGA 7 cut(s) 248, 317, 1389, 1535, 1625, 1773, 1821
Hpy8I GTNNAC 7 cut(s) 390, 627, 865, 1004, 1034, 1330, 1599
Hpy99I CGWCG 1 cut(s) 1719
HpyAV CCTTC 5 cut(s) 319, 498, 523, 670, 900
HpyCH4IV ACGT 3 cut(s) 348, 599, 1731
HpyF10VI GCNNNNNNNGC 6 cut(s) 83, 443, 761, 1064, 1316, 1672
HpySE526I ACGT 3 cut(s) 348, 599, 1731
Hsp92II CATG 8 cut(s) 768, 916, 946, 1063, 1078, 1328, 1409, 1538
HspAI GCGC 1 cut(s) 86
Ksp22I TGATCA 1 cut(s) 1810
KspI CCGCGG 1 cut(s) 753
LmnI GCTCC 8 cut(s) 10, 60, 74, 851, 1100, 1324, 1663, 1672
Lsp1109I GCAGC 2 cut(s) 742, 1546
LweI GCATC 5 cut(s) 162, 184, 625, 1411, 1630
MabI ACCWGGT 1 cut(s) 1183
MaeI CTAG 3 cut(s) 201, 309, 1470
MaeII ACGT 3 cut(s) 348, 599, 1731
MaeIII GTNAC 4 cut(s) 496, 1235, 1700, 1727
MfeI CAATTG 1 cut(s) 579
MflI RGATCY 1 cut(s) 1583
MhlI GDGCHC 3 cut(s) 49, 1668, 1677
MlyI GAGTC 3 cut(s) 216, 883, 1484
MmeI TCCRAC 3 cut(s) 274, 1078, 1235
Mph1103I ATGCAT 1 cut(s) 177
MroXI GAANNNNTTC 1 cut(s) 304
MseI TTAA 5 cut(s) 147, 540, 684, 839, 1293
MslI CAYNNNNRTG 2 cut(s) 1626, 1867
MspA1I CMGCKG 2 cut(s) 494, 752
MspI CCGG 5 cut(s) 267, 282, 1042, 1669, 1802
MunI CAATTG 1 cut(s) 579
Mva1269I GAATGC 2 cut(s) 1183, 1275
MvnI CGCG 1 cut(s) 752
MwoI GCNNNNNNNGC 6 cut(s) 83, 443, 761, 1064, 1316, 1672
NciI CCSGG 3 cut(s) 283, 1043, 1670
NcoI CCATGG 1 cut(s) 1059
NdeI CATATG 1 cut(s) 372
NlaIII CATG 8 cut(s) 768, 916, 946, 1063, 1078, 1328, 1409, 1538
NlaIV GGNNCC 9 cut(s) 76, 189, 478, 507, 1057, 1197, 1247, 1606, 1674
NmuCI GTSAC 1 cut(s) 1727
NsiI ATGCAT 1 cut(s) 177
NspI RCATGY 1 cut(s) 768
PaeI GCATGC 1 cut(s) 768
PagI TCATGA 1 cut(s) 1534
PcsI WCGNNNNNNNCGW 1 cut(s) 1723
PctI GAATGC 2 cut(s) 1183, 1275
PdmI GAANNNNTTC 1 cut(s) 304
PfeI GAWTC 1 cut(s) 419
PfoI TCCNGGA 2 cut(s) 1144, 1264
PkrI GCNGC 3 cut(s) 754, 757, 1561
PleI GAGTC 3 cut(s) 216, 883, 1483
PpsI GAGTC 3 cut(s) 216, 883, 1483
PpuMI RGGWCCY 3 cut(s) 1025, 1142, 1196
Psp5II RGGWCCY 3 cut(s) 1025, 1142, 1196
PspFI CCCAGC 4 cut(s) 926, 1091, 1310, 1333
PspN4I GGNNCC 9 cut(s) 76, 189, 478, 507, 1057, 1197, 1247, 1606, 1674
PspPPI RGGWCCY 3 cut(s) 1025, 1142, 1196
PstI CTGCAG 1 cut(s) 171
PstNI CAGNNNCTG 2 cut(s) 197, 1145
PsuI RGATCY 1 cut(s) 1583
PvuII CAGCTG 1 cut(s) 494
RsaI GTAC 1 cut(s) 1014
RsaNI GTAC 1 cut(s) 1013
RseI CAYNNNNRTG 2 cut(s) 1626, 1867
SacII CCGCGG 1 cut(s) 753
SaqAI TTAA 5 cut(s) 147, 540, 684, 839, 1293
SatI GCNGC 3 cut(s) 753, 756, 1560
SchI GAGTC 3 cut(s) 216, 883, 1484
SduI GDGCHC 3 cut(s) 49, 1668, 1677
SexAI ACCWGGT 1 cut(s) 1183
SfaNI GCATC 5 cut(s) 162, 184, 625, 1411, 1630
SfcI CTRYAG 2 cut(s) 167, 1161
Sfr303I CCGCGG 1 cut(s) 753
SgrBI CCGCGG 1 cut(s) 753
SinI GGWCC 8 cut(s) 485, 1025, 1034, 1142, 1157, 1196, 1253, 1788
SmiMI CAYNNNNRTG 2 cut(s) 1626, 1867
SmlI CTYRAG 2 cut(s) 360, 1564
SmoI CTYRAG 2 cut(s) 360, 1564
SphI GCATGC 1 cut(s) 768
SsiI CCGC 2 cut(s) 750, 752
SspMI CTAG 3 cut(s) 201, 309, 1470
StyI CCWWGG 3 cut(s) 874, 898, 1059
TaiI ACGT 3 cut(s) 351, 602, 1734
TaqI TCGA 5 cut(s) 178, 1225, 1462, 1717, 1822
TauI GCSGC 1 cut(s) 755
TfiI GAWTC 1 cut(s) 419
Tru1I TTAA 5 cut(s) 147, 540, 684, 839, 1293
Tru9I TTAA 5 cut(s) 147, 540, 684, 839, 1293
TscAI CASTG 3 cut(s) 487, 712, 766
TseFI GTSAC 1 cut(s) 1727
TseI GCWGC 2 cut(s) 755, 1559
Tsp45I GTSAC 1 cut(s) 1727
TspGWI ACGGA 2 cut(s) 560, 1254
TspRI CASTG 3 cut(s) 487, 712, 766
VpaK11BI GGWCC 8 cut(s) 485, 1025, 1034, 1142, 1157, 1196, 1253, 1788
XagI CCTNNNNNAGG 2 cut(s) 1164, 1612
XapI RAATTY 6 cut(s) 19, 277, 440, 469, 946, 973
XceI RCATGY 1 cut(s) 768
XcmI CCANNNNNNNNNTGG 1 cut(s) 604
XmnI GAANNNNTTC 1 cut(s) 304
XspI CTAG 3 cut(s) 201, 309, 1470
Zsp2I ATGCAT 1 cut(s) 177
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.