Rroxscaffold_3G00274790

Domain in histone families 1 and 5

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0009974
Physical Location & Seq
Reverse (-)
66420723 .. 66423603
2881 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00274790.1

Sequence Viewer

Length: 1644 bp
ATGGACCCACCACCTCCTCCCAATCCCAATCCTTATCCACCGCCGCCCATCCCCACCTCCACCGCCACCATCTCCGCCGTGGAACCTGACAACAACAGCAACAACACCGCCGCCGCCGCCACTCATGTAGCTGCCAACCCCACTCATGCTGCTGCCCCTACTTTCAACCACCCTCCTTATGCTGAGATGATATACACAGCTATTGCAGCGTTGAAGGAGAGAGACGGGTCGAGCAGGAGAGCTATAGCCAAGTACATCGAGCAGGTCTACCCGAGTCTCCCACCAACTCACTCGGCCTTGTTGACTCGCCATCTCAAACGACTCAAGAACTCTGGTCATCTTGAGATGGTCAAGAAGTCCTACAAGATCCCAGGTCCTCCCAGATCTGACGCTCCGCCTCCTCCTGCAACTGACTCTCCTGCTCCTACCTCTGTTGGCTCTCCCGGGCAGCCCCGCGGCCGCGGCCGTCCTCCCAAGCCCAAGCCGGAACAGCAGCTTATGCAGCAGCCGCCGCAGTTGCCACAGTTGATTGTTTCCCAACCGCAGCATCAGCATCAGCATCACATTTTACAACAGCCCATTCCGATTCCGCAGCAGCCAATTCCCATTCCTCAACAGCCAATTCCTATTCCTCAGCAGCCAATTCCCATTTCTCACCCGCCATTTCCCATTTCTCAACAGTCATTTCCCATTTCTCAACAGCCGATTCCCTTTTCTCAACAGCCGTTTTCCATTTCTCAACAGCCGATTTCGGTTTCAATTCCAATTCCAATTCCGATTCCGCAACAGCCAATTCCCATTCCCCAACAACACCCCATTGTCCAGCCCAATTTTCAATCTTTTCCACAGCCCACCCTGCCGCAGCAGAGCTTTCCCGAGCCCACTGTTCAGCAGCAGCCCAATTCTCAGCCCATGCCCCTGGATGAGCCTAAGAAGCGACCCGGCCGGCCACGCAAAGCTCCGGCAGCCCTTGCCATAGGCCAGAATAGTCCGGTTGTGTCAGCCAAGAGGGGCAGGGGTCGTCCACCGGGGTCTAGGATGTCGAAGAAGAGACCAGGCCGTCCTCCCAAACCCAAGACTGTTTCGAGTGTTTCAAGTTCTAATGGGCTGGTGAAGAGGAGGCCAGGACGTCCCTCCAAAGCTGAGCCGAGGACTGTGTTTATTCCATATGCTACTAATGTGCCTATAATTGGAGCATTTGAACAGGCCAATGGGCCGGGTGCAGTAGTGCCACAACCAGCACCAAGGCCCAGAGGTCGGCCCAAGAAGGATAAGTCGGCTGCCGCCTCTTCTGGTGTGGCGGCGGGCAGTGGTAAGCCACGGGGTAGACCGCCTCTGGTTCCTGGGGTGGAGCGGCCCAAGTTAAGTAGGAGTGGGAGGCCTGTGGGCAGGCCCAAGAAGGACGCATCACTGGCAATAACTGCAGCACCTGACCCAAATTTAGCTGCCAATGCTGAATTGAAGAGGAAACTGGAATACTTTCAATTAAGAGTGGGGCAAGCTGTTGGCGTGCTAAAACCTTTCTTGAACAATGAAAGCGCAGCTGGTGCCGCTGCTGCAATCCAAGAATTAGAAGGGCTTGCAACCTTGGACATCACTGCCCCATTAAATATTGCAACTCAACAGCCAGCGCTCCAAAGTTGA

Protein Analysis

547

Amino Acids

58.49

Weight (kDa)

10.88

Isoelectric Point (pI)

68.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Linker_histone PF00538 57 - 118 1.8e-16 linker histone H1 and H5 family
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: OG0009974)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G48620 AT3G18035 AT3G18035
fragaria_vesca FvH4_5g17210
malus_domestica MD06G1230400.v1.1 MD14G1235000.v1.1
prunus_persica Prupe.5G231600_v2.0.a1
pyrus_communis pycom06g20160 pycom14g19600
rosa_chinensis RchiOBHm_Chr1g0337641 RchiOBHm_Chr7g0178581
rosa_laevigata RLG00000005435
rosa_multiflora Rmu_sc0002320.1_g000001
rosa_roxburghii Rroxscaffold_3G00274790
rosa_rugosa Rorug06G0418100
rosa_samantha Rh7AG016800 Rh7BG016300 Rh7CG017000 Rh7DG016900 Rh7DG161800
rosa_wichuraiana Rw7G001340

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1059
AatII GACGTC 1 cut(s) 1132
Acc36I ACCTGC 1 cut(s) 253
AccB1I GGYRCC 1 cut(s) 1547
AccBSI CCGCTC 1 cut(s) 1354
AccI GTMKAC 2 cut(s) 267, 1327
AccII CGCG 2 cut(s) 456, 462
AclWI GGATC 1 cut(s) 361
AcoI YGGCCR 4 cut(s) 457, 463, 943, 947
AcsI RAATTY 1 cut(s) 1438
AcyI GRCGYC 1 cut(s) 1129
AfaI GTAC 1 cut(s) 254
AfeI AGCGCT 1 cut(s) 1632
AfiI CCNNNNNNNGG 2 cut(s) 1190, 1257
AgsI TTSAA 9 cut(s) 166, 214, 759, 836, 1095, 1202, 1462, 1484, 1528
AjnI CCWGG 5 cut(s) 370, 918, 1054, 1123, 1342
AjuI GAANNNNNNNTTGG 2 cut(s) 634, 666
Alw26I GTCTC 3 cut(s) 216, 281, 1045
AlwI GGATC 1 cut(s) 361
AlwNI CAGNNNCTG 1 cut(s) 1430
Ama87I CYCGRG 3 cut(s) 271, 443, 875
Aor51HI AGCGCT 1 cut(s) 1632
ApoI RAATTY 1 cut(s) 1438
Asp700I GAANNNNTTC 1 cut(s) 1479
AspLEI GCGC 2 cut(s) 1541, 1633
AspS9I GGNCC 7 cut(s) 4, 374, 1214, 1248, 1260, 1356, 1392
AsuC2I CCSGG 5 cut(s) 444, 445, 942, 1029, 1218
AsuHPI GGTGA 2 cut(s) 647, 1123
AvaI CYCGRG 3 cut(s) 271, 443, 875
AvaII GGWCC 2 cut(s) 4, 374
BanI GGYRCC 1 cut(s) 1547
BanII GRGCYC 1 cut(s) 882
BbvCI CCTCAGC 1 cut(s) 633
BccI CCATC 4 cut(s) 56, 77, 318, 340
BceAI ACGGC 4 cut(s) 62, 450, 709, 1044
BciT130I CCWGG 5 cut(s) 372, 920, 1056, 1125, 1344
BcnI CCSGG 5 cut(s) 444, 445, 942, 1029, 1218
BcoDI GTCTC 3 cut(s) 216, 281, 1045
BfaI CTAG 1 cut(s) 1035
BfmI CTRYAG 2 cut(s) 243, 1422
BfoI RGCGCY 1 cut(s) 1634
BfuAI ACCTGC 1 cut(s) 253
BglII AGATCT 1 cut(s) 383
BlpI GCTNAGC 1 cut(s) 1143
Bme18I GGWCC 2 cut(s) 4, 374
BmeT110I CYCGRG 3 cut(s) 271, 443, 875
BmgT120I GGNCC 7 cut(s) 4, 374, 1214, 1248, 1260, 1356, 1392
BmiI GGNNCC 4 cut(s) 6, 84, 1341, 1549
BmsI GCATC 4 cut(s) 556, 562, 568, 1415
Bpu10I CCTNAGC 1 cut(s) 633
Bpu1102I GCTNAGC 1 cut(s) 1143
BpuEI CTTGAG 2 cut(s) 308, 362
BpuMI CCSGG 5 cut(s) 444, 445, 942, 1029, 1218
BsaHI GRCGYC 1 cut(s) 1129
BsaI GGTCTC 1 cut(s) 1045
BsaWI WCCGGW 1 cut(s) 991
BsaXI ACNNNNNCTCC 2 cut(s) 400, 430
Bsc4I CCNNNNNNNGG 2 cut(s) 1190, 1257
Bse118I RCCGGY 1 cut(s) 945
Bse1I ACTGG 2 cut(s) 1416, 1476
BseBI CCWGG 5 cut(s) 372, 920, 1056, 1125, 1344
BseGI GGATG 3 cut(s) 48, 928, 1044
BseLI CCNNNNNNNGG 2 cut(s) 1190, 1257
BseMII CTCAG 4 cut(s) 174, 647, 920, 1134
BseNI ACTGG 2 cut(s) 1416, 1476
BseRI GAGGAG 3 cut(s) 6, 390, 1132
BseX3I CGGCCG 3 cut(s) 457, 463, 943
BsgI GTGCAG 1 cut(s) 1242
Bsh1236I CGCG 2 cut(s) 456, 462
Bsh1285I CGRYCG 3 cut(s) 460, 466, 946
BshNI GGYRCC 1 cut(s) 1547
BsiEI CGRYCG 3 cut(s) 460, 466, 946
BsiHKCI CYCGRG 3 cut(s) 271, 443, 875
BsiSI CCGG 8 cut(s) 444, 485, 942, 946, 962, 992, 1028, 1217
BslFI GGGAC 1 cut(s) 1116
BslI CCNNNNNNNGG 2 cut(s) 1190, 1257
BsmAI GTCTC 3 cut(s) 216, 281, 1045
BsmBI CGTCTC 1 cut(s) 216
BsmFI GGGAC 1 cut(s) 1116
Bso31I GGTCTC 1 cut(s) 1045
BsoBI CYCGRG 3 cut(s) 271, 443, 875
Bsp1286I GDGCHC 1 cut(s) 882
Bsp143I GATC 2 cut(s) 366, 383
Bsp1720I GCTNAGC 1 cut(s) 1143
BspCNI CTCAG 4 cut(s) 175, 646, 919, 1135
BspFNI CGCG 2 cut(s) 456, 462
BspLI GGNNCC 4 cut(s) 6, 84, 1341, 1549
BspMAI CTGCAG 1 cut(s) 1426
BspMI ACCTGC 1 cut(s) 253
BspPI GGATC 1 cut(s) 361
BspT107I GGYRCC 1 cut(s) 1547
BspTNI GGTCTC 1 cut(s) 1045
BsrBI CCGCTC 1 cut(s) 1354
BsrFI RCCGGY 1 cut(s) 945
BsrI ACTGG 2 cut(s) 1416, 1476
BssAI RCCGGY 1 cut(s) 945
BssMI GATC 2 cut(s) 366, 383
BssNI GRCGYC 1 cut(s) 1129
BssT1I CCWWGG 2 cut(s) 1244, 1587
Bst2UI CCWGG 5 cut(s) 372, 920, 1056, 1125, 1344
Bst4CI ACNGT 5 cut(s) 525, 681, 886, 1081, 1156
Bst6I CTCTTC 4 cut(s) 1043, 1109, 1294, 1457
BstACI GRCGYC 1 cut(s) 1129
BstAPI GCANNNNNTGC 4 cut(s) 499, 971, 1421, 1547
BstC8I GCNNGC 7 cut(s) 947, 1306, 1391, 1500, 1511, 1581, 1629
BstDEI CTNAG 5 cut(s) 183, 633, 906, 930, 1143
BstDSI CCRYGG 4 cut(s) 78, 454, 460, 1319
BstF5I GGATG 3 cut(s) 48, 928, 1044
BstFNI CGCG 2 cut(s) 456, 462
BstH2I RGCGCY 1 cut(s) 1634
BstHHI GCGC 2 cut(s) 1541, 1633
BstKTI GATC 2 cut(s) 369, 386
BstMAI GTCTC 3 cut(s) 216, 281, 1045
BstMBI GATC 2 cut(s) 366, 383
BstMCI CGRYCG 3 cut(s) 460, 466, 946
BstNI CCWGG 5 cut(s) 372, 920, 1056, 1125, 1344
BstSFI CTRYAG 2 cut(s) 243, 1422
BstUI CGCG 2 cut(s) 456, 462
BstX2I RGATCY 2 cut(s) 366, 383
BstXI CCANNNNNNTGG 1 cut(s) 919
BstYI RGATCY 2 cut(s) 366, 383
BstZI CGGCCG 3 cut(s) 457, 463, 943
BtgI CCRYGG 4 cut(s) 78, 454, 460, 1319
BtsCI GGATG 3 cut(s) 48, 928, 1044
BtsI GCAGTG 2 cut(s) 1315, 1596
BtsIMutI CAGTG 4 cut(s) 882, 1315, 1409, 1596
BveI ACCTGC 1 cut(s) 253
Cac8I GCNNGC 7 cut(s) 947, 1306, 1391, 1500, 1511, 1581, 1629
CaiI CAGNNNCTG 1 cut(s) 1430
CciNI GCGGCCGC 1 cut(s) 457
CfoI GCGC 2 cut(s) 1541, 1633
Cfr10I RCCGGY 1 cut(s) 945
Cfr13I GGNCC 7 cut(s) 4, 374, 1214, 1248, 1260, 1356, 1392
Cfr42I CCGCGG 2 cut(s) 457, 463
Cfr9I CCCGGG 1 cut(s) 443
CseI GACGC 2 cut(s) 398, 1412
Csp6I GTAC 1 cut(s) 253
CviAII CATG 3 cut(s) 125, 146, 913
CviQI GTAC 1 cut(s) 253
DdeI CTNAG 5 cut(s) 183, 633, 906, 930, 1143
DpnI GATC 2 cut(s) 368, 385
DpnII GATC 2 cut(s) 366, 383
DrdI GACNNNNNNGTC 1 cut(s) 1059
DseDI GACNNNNNNGTC 1 cut(s) 1059
EaeI YGGCCR 4 cut(s) 457, 463, 943, 947
EagI CGGCCG 3 cut(s) 457, 463, 943
Eam1104I CTCTTC 4 cut(s) 1043, 1109, 1294, 1457
EarI CTCTTC 4 cut(s) 1043, 1109, 1294, 1457
EciI GGCGGA 2 cut(s) 64, 384
EclXI CGGCCG 3 cut(s) 457, 463, 943
Eco130I CCWWGG 2 cut(s) 1244, 1587
Eco147I AGGCCT 1 cut(s) 1381
Eco24I GRGCYC 1 cut(s) 882
Eco31I GGTCTC 1 cut(s) 1045
Eco47I GGWCC 2 cut(s) 4, 374
Eco47III AGCGCT 1 cut(s) 1632
Eco52I CGGCCG 3 cut(s) 457, 463, 943
Eco88I CYCGRG 3 cut(s) 271, 443, 875
EcoO109I RGGNCCY 1 cut(s) 374
EcoRII CCWGG 5 cut(s) 370, 918, 1054, 1123, 1342
EcoT14I CCWWGG 2 cut(s) 1244, 1587
EcoT38I GRGCYC 1 cut(s) 882
ErhI CCWWGG 2 cut(s) 1244, 1587
Esp3I CGTCTC 1 cut(s) 216
FaeI CATG 3 cut(s) 128, 149, 916
FaqI GGGAC 1 cut(s) 1116
FatI CATG 3 cut(s) 124, 145, 912
FauI CCCGC 3 cut(s) 461, 666, 1297
FauNDI CATATG 1 cut(s) 1168
FblI GTMKAC 2 cut(s) 267, 1327
FokI GGATG 3 cut(s) 35, 935, 1051
FriOI GRGCYC 1 cut(s) 882
FseI GGCCGGCC 1 cut(s) 949
FspBI CTAG 1 cut(s) 1035
GlaI GCGC 2 cut(s) 1540, 1632
HaeII RGCGCY 1 cut(s) 1634
HapII CCGG 8 cut(s) 444, 485, 942, 946, 962, 992, 1028, 1217
HgaI GACGC 2 cut(s) 398, 1412
HhaI GCGC 2 cut(s) 1541, 1633
Hin1I GRCGYC 1 cut(s) 1129
Hin1II CATG 3 cut(s) 128, 149, 916
Hin6I GCGC 2 cut(s) 1539, 1631
HinP1I GCGC 2 cut(s) 1539, 1631
HincII GTYRAC 1 cut(s) 303
HindII GTYRAC 1 cut(s) 303
HinfI GANTC 7 cut(s) 274, 304, 321, 413, 586, 706, 778
HpaII CCGG 8 cut(s) 444, 485, 942, 946, 962, 992, 1028, 1217
HphI GGTGA 2 cut(s) 647, 1123
Hpy166II GTNNAC 4 cut(s) 268, 303, 1025, 1328
Hpy188I TCNGA 3 cut(s) 388, 585, 777
Hpy188III TCNNGA 5 cut(s) 325, 341, 352, 875, 1525
Hpy8I GTNNAC 4 cut(s) 268, 303, 1025, 1328
HpyAV CCTTC 4 cut(s) 208, 1261, 1393, 1568
HpyCH4III ACNGT 5 cut(s) 525, 681, 886, 1081, 1156
HpyCH4IV ACGT 1 cut(s) 1129
HpyCH4V TGCA 8 cut(s) 206, 407, 502, 1223, 1424, 1559, 1583, 1616
HpyF3I CTNAG 5 cut(s) 183, 633, 906, 930, 1143
HpySE526I ACGT 1 cut(s) 1129
Hsp92I GRCGYC 1 cut(s) 1129
Hsp92II CATG 3 cut(s) 128, 149, 916
HspAI GCGC 2 cut(s) 1539, 1631
KroI GCCGGC 1 cut(s) 945
KroNI GCCGGC 1 cut(s) 947
KspI CCGCGG 2 cut(s) 457, 463
Kzo9I GATC 2 cut(s) 366, 383
LmnI GCTCC 6 cut(s) 397, 427, 964, 1193, 1351, 1638
LweI GCATC 4 cut(s) 556, 562, 568, 1415
MaeI CTAG 1 cut(s) 1035
MaeII ACGT 1 cut(s) 1129
MalI GATC 2 cut(s) 368, 385
MbiI CCGCTC 1 cut(s) 1354
MboI GATC 2 cut(s) 366, 383
MboII GAAGA 5 cut(s) 1057, 1060, 1126, 1281, 1474
MflI RGATCY 2 cut(s) 366, 383
MhlI GDGCHC 1 cut(s) 882
MlyI GAGTC 4 cut(s) 283, 298, 315, 407
MroNI GCCGGC 1 cut(s) 945
MroXI GAANNNNTTC 1 cut(s) 1479
MseI TTAA 3 cut(s) 1364, 1487, 1607
MspA1I CMGCKG 4 cut(s) 456, 462, 1544, 1553
MspI CCGG 8 cut(s) 444, 485, 942, 946, 962, 992, 1028, 1217
MvaI CCWGG 5 cut(s) 372, 920, 1056, 1125, 1344
MvnI CGCG 2 cut(s) 456, 462
NaeI GCCGGC 1 cut(s) 947
NciI CCSGG 5 cut(s) 444, 445, 942, 1029, 1218
NdeI CATATG 1 cut(s) 1168
NdeII GATC 2 cut(s) 366, 383
NgoMIV GCCGGC 1 cut(s) 945
NlaIII CATG 3 cut(s) 128, 149, 916
NlaIV GGNNCC 4 cut(s) 6, 84, 1341, 1549
NmeAIII GCCGAG 2 cut(s) 272, 1173
NotI GCGGCCGC 1 cut(s) 457
PceI AGGCCT 1 cut(s) 1381
PdiI GCCGGC 1 cut(s) 947
PdmI GAANNNNTTC 1 cut(s) 1479
PfeI GAWTC 3 cut(s) 586, 706, 778
PleI GAGTC 4 cut(s) 282, 298, 315, 407
PpsI GAGTC 4 cut(s) 282, 298, 315, 407
PpuMI RGGWCCY 1 cut(s) 374
Psp5II RGGWCCY 1 cut(s) 374
Psp6I CCWGG 5 cut(s) 370, 918, 1054, 1123, 1342
PspGI CCWGG 5 cut(s) 370, 918, 1054, 1123, 1342
PspN4I GGNNCC 4 cut(s) 6, 84, 1341, 1549
PspPI GGNCC 7 cut(s) 4, 374, 1214, 1248, 1260, 1356, 1392
PspPPI RGGWCCY 1 cut(s) 374
PstI CTGCAG 1 cut(s) 1426
PstNI CAGNNNCTG 1 cut(s) 1430
PsuI RGATCY 2 cut(s) 366, 383
PvuII CAGCTG 1 cut(s) 1544
RigI GGCCGGCC 1 cut(s) 949
RsaI GTAC 1 cut(s) 254
RsaNI GTAC 1 cut(s) 253
SacII CCGCGG 2 cut(s) 457, 463
SaqAI TTAA 3 cut(s) 1364, 1487, 1607
Sau3AI GATC 2 cut(s) 366, 383
Sau96I GGNCC 7 cut(s) 4, 374, 1214, 1248, 1260, 1356, 1392
SchI GAGTC 4 cut(s) 283, 298, 315, 407
SduI GDGCHC 1 cut(s) 882
SfaNI GCATC 4 cut(s) 556, 562, 568, 1415
SfcI CTRYAG 2 cut(s) 243, 1422
Sfr303I CCGCGG 2 cut(s) 457, 463
SgrBI CCGCGG 2 cut(s) 457, 463
SinI GGWCC 2 cut(s) 4, 374
SmaI CCCGGG 1 cut(s) 445
SmlI CTYRAG 2 cut(s) 323, 341
SmoI CTYRAG 2 cut(s) 323, 341
SseBI AGGCCT 1 cut(s) 1381
SspI AATATT 1 cut(s) 1612
SspMI CTAG 1 cut(s) 1035
StuI AGGCCT 1 cut(s) 1381
StyI CCWWGG 2 cut(s) 1244, 1587
TaaI ACNGT 5 cut(s) 525, 681, 886, 1081, 1156
TaiI ACGT 1 cut(s) 1132
TaqI TCGA 4 cut(s) 230, 258, 1043, 1085
TatI WGTACW 1 cut(s) 252
TfiI GAWTC 3 cut(s) 586, 706, 778
Tru1I TTAA 3 cut(s) 1364, 1487, 1607
Tru9I TTAA 3 cut(s) 1364, 1487, 1607
TscAI CASTG 4 cut(s) 889, 1315, 1416, 1603
TspDTI ATGAA 1 cut(s) 1548
TspMI CCCGGG 1 cut(s) 443
TspRI CASTG 4 cut(s) 889, 1315, 1416, 1603
VpaK11BI GGWCC 2 cut(s) 4, 374
XapI RAATTY 1 cut(s) 1438
XcmI CCANNNNNNNNNTGG 1 cut(s) 76
XmaI CCCGGG 1 cut(s) 443
XmiI GTMKAC 2 cut(s) 267, 1327
XmnI GAANNNNTTC 1 cut(s) 1479
XspI CTAG 1 cut(s) 1035
ZraI GACGTC 1 cut(s) 1130
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.