Rroxscaffold_2G00105180

Neurochondrin

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0019894
Physical Location & Seq
Reverse (-)
28602512 .. 28604292
1781 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00105180.1

Sequence Viewer

Length: 1764 bp
ATGGCTTCGCAGCAAGACACTCAATCTCCGCCGCTGGTTCACGACTGCTTGAAACTATTGAAGTCCGAGACAGACGAGCAGCGCCTCGCCGGCCTCGACCTCCTCACCCAATTTCGCAAAGCCAACGACCTCTCCTCTCTCCTCACTATTCACCACGCCCTCGGTCCCCACTTTCTCGATCAACTCCTCCGCACCGCCACCGCCCGCCGCAACGACGCCGTTTTACTTCTCTCAATCACAGCTCTCGCCGCCTTCTGCCGCGTTCCCCAAATCGCCGCCGCAAACGACGTCGTCTCCAAGATTCCACTCGTACTCAAACTTGTCTCAACATCTCAAGAATCAGACCCAATTCTCCAAGAATGCTATGAGTTTCTGTATTTGGTGTCTACAGCTTCCGATAAGGGAGCCACTACATTGTTCAATTCTAGGGGCTTCATCAAAATGCTGGCTTCTCATATACCAGTTTTACCCGACGGTGTTGCTATTAAGCTTGTGCAAAATTTACTAAGAAAAGTGGTGTTTCTTGATATATATGTGGCAGAGCTCTCAGTGATTGTGGCTACATTGGCAAGGCAATTTGCTATGTTGCACAATGCTGCGAAATTCGATGCTCTGCATCTACTTTCGAGCATTCTCTCATCAACACATTTGAATTCAGCCCGGCTTCGGGACTCACTTCGGCTGCTTTCGGATAGAAACTGGCCAAATTACATGCGTGATGGTGTTGTGGCTATTTTGCAAAACCATGTTGGAGCCAATGAGAAGCTGGAGGCGCTTGTTTTGGCTGAGGCTATGGTGTCGATTTTCGGGGAGGGGTGGTTGGTAGGGGAGATAGATAATGTAGGGGAACTTGATGGGAAGAAAGAGCCTATTCCGGCTGACAGGTGCTTACTGCTTGTTTTGGAGCAATCAAGAGTTGAGGTTGCTGTTCTGTTGAAAGCACTTGCCTATTTGAGAAATGAAGCAAGTAAGAATTCGAAATCTTCACCAACTGGTGAGACAGTTTGTTCGAAGAAAAGGAATGTGGCTCTGATCTTTTCCTTGGTTGAAAAGATAATTAACTTGATGTCGAATGCTGTTGCTAGTGAGAATGAAGAGGAAGTACTTGTTGATGAAAGTACTTGTGTGAAGATGATTGACGGCCTCAATGAGACGATTGGTGTGGTTCTGGAATATTTACAGGATGCAAAGGAACATGGAGAGAGGACAGGAAATGATCTTCTTGCTTCGATATGTTGCAGAAACTCCCTTGCATGCGAAGACAAGGTTGGAGAGCTTTTAGGGTATATGCTTTCGATAGAAGGTGAAGATGAACCAACAGGACCCTTCTACTCGGTATGCTATTTGCTTCCAATGCTGTGCCAAATGACAGTAGAGATTGAAGGATGTAAAGCTTTGATTTCTTGTGGAGGTCATAACACTGTTGTTGACTGGCTTGTAAGATTGATTCGGCAACATAATCGTTATATGGGCGAGGATAATGGTTGCATCTATTTTGCATGGGGCACCATCTTGAATCTTCTTTCAAACAAAGAGCTAGTGCCAGTGCCATTGGATGAATCAACTGCTGTTAATCTATTGAAAGCATTGGCATATTGGACAGAAAGCACTCATGATGATGACCCGTCAATTGTTATGATGGCTTCAAGAATTTGCGCATTGTTGTTGGATTTTACATCGCAGAAGGCTCTTCTTAAGAATCCTGACTTCGACAACAACTCTCTTGGTAGATTGTTTCGGCTGATTGCAAGAAGTTTGGCTTGA
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
Neurochondrin

Protein Analysis

587

Amino Acids

64.69

Weight (kDa)

5.26

Isoelectric Point (pI)

39.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Neurochondrin PF05536 8 - 570 1.9e-85 Neurochondrin
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: OG0019894)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0139901
rosa_laevigata RLG00000019837
rosa_multiflora Rmu_sc0000545.1_g000022
rosa_roxburghii Rroxscaffold_2G00105180
rosa_rugosa Rorug02G0360100
rosa_samantha Rh2BG420400
rosa_wichuraiana Rw2G033360

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 291
Acc16I TGCGCA 1 cut(s) 1657
AccB1I GGYRCC 1 cut(s) 1505
AccI GTMKAC 1 cut(s) 386
AccII CGCG 1 cut(s) 261
AcoI YGGCCR 1 cut(s) 701
AcsI RAATTY 5 cut(s) 499, 602, 652, 973, 1650
AcyI GRCGYC 2 cut(s) 216, 288
AfaI GTAC 3 cut(s) 312, 1104, 1120
AfiI CCNNNNNNNGG 2 cut(s) 666, 667
AflII CTTAAG 1 cut(s) 1694
AjuI GAANNNNNNNTTGG 2 cut(s) 1251, 1283
AluBI AGCT 8 cut(s) 242, 392, 490, 544, 766, 1276, 1394, 1537
AluI AGCT 8 cut(s) 242, 392, 490, 544, 766, 1276, 1394, 1537
Alw21I GWGCWC 1 cut(s) 546
Alw26I GTCTC 5 cut(s) 62, 298, 328, 992, 1145
AoxI GGCC 3 cut(s) 91, 701, 1141
ApeKI GCWGC 4 cut(s) 10, 79, 596, 682
ApoI RAATTY 5 cut(s) 499, 602, 652, 973, 1650
ArsI GACNNNNNNTTYG 2 cut(s) 991, 1023
AspLEI GCGC 3 cut(s) 84, 775, 1658
AspS9I GGNCC 2 cut(s) 164, 1322
AsuC2I CCSGG 1 cut(s) 661
AsuHPI GGTGA 5 cut(s) 97, 143, 978, 1007, 1316
AsuII TTCGAA 2 cut(s) 977, 1010
AvaII GGWCC 2 cut(s) 164, 1322
BaeGI GKGCMC 1 cut(s) 1508
BalI TGGCCA 1 cut(s) 703
BanI GGYRCC 1 cut(s) 1505
BanII GRGCYC 1 cut(s) 546
BarI GAAGNNNNNNTAC 2 cut(s) 1086, 1118
BbsI GAAGAC 1 cut(s) 1266
Bbv12I GWGCWC 1 cut(s) 546
BbvCI CCTCAGC 1 cut(s) 786
BbvI GCAGC 4 cut(s) 22, 91, 583, 669
BccI CCATC 4 cut(s) 713, 848, 1517, 1633
BceAI ACGGC 2 cut(s) 203, 1156
BcgI CGANNNNNNTGC 4 cut(s) 461, 495, 1442, 1476
BcnI CCSGG 1 cut(s) 661
BcoDI GTCTC 5 cut(s) 62, 298, 328, 992, 1145
BfaI CTAG 3 cut(s) 426, 1083, 1538
BfmI CTRYAG 1 cut(s) 387
BfoI RGCGCY 2 cut(s) 85, 776
BfrI CTTAAG 1 cut(s) 1694
BglI GCCNNNNNGGC 1 cut(s) 90
BmcAI AGTACT 2 cut(s) 1104, 1120
Bme1390I CCNGG 1 cut(s) 661
Bme18I GGWCC 2 cut(s) 164, 1322
BmgT120I GGNCC 2 cut(s) 164, 1322
BmiI GGNNCC 5 cut(s) 166, 406, 754, 1324, 1507
BmrFI CCNGG 1 cut(s) 661
BmsI GCATC 4 cut(s) 598, 625, 1174, 1497
BpiI GAAGAC 1 cut(s) 1266
BpmI CTGGAG 1 cut(s) 788
Bpu10I CCTNAGC 1 cut(s) 786
Bpu14I TTCGAA 2 cut(s) 977, 1010
BpuEI CTTGAG 1 cut(s) 318
BpuMI CCSGG 1 cut(s) 661
BsaHI GRCGYC 2 cut(s) 216, 288
BsaJI CCNNGG 2 cut(s) 160, 1041
BsaXI ACNNNNNCTCC 8 cut(s) 10, 40, 116, 146, 278, 308, 803, 833
Bsc4I CCNNNNNNNGG 2 cut(s) 666, 667
Bse118I RCCGGY 1 cut(s) 89
Bse1I ACTGG 5 cut(s) 461, 704, 997, 1436, 1544
BseDI CCNNGG 2 cut(s) 160, 1041
BseGI GGATG 3 cut(s) 1189, 1391, 1561
BseLI CCNNNNNNNGG 2 cut(s) 666, 667
BseMII CTCAG 2 cut(s) 561, 777
BseNI ACTGG 5 cut(s) 461, 704, 997, 1436, 1544
BseRI GAGGAG 4 cut(s) 92, 124, 131, 176
BseSI GKGCMC 1 cut(s) 1508
BseXI GCAGC 4 cut(s) 22, 91, 583, 669
Bsh1236I CGCG 1 cut(s) 261
BshFI GGCC 3 cut(s) 93, 703, 1143
BshNI GGYRCC 1 cut(s) 1505
BsiHKAI GWGCWC 1 cut(s) 546
BsiSI CCGG 3 cut(s) 90, 661, 875
BslFI GGGAC 2 cut(s) 150, 683
BslI CCNNNNNNNGG 2 cut(s) 666, 667
BsmAI GTCTC 5 cut(s) 62, 298, 328, 992, 1145
BsmBI CGTCTC 2 cut(s) 298, 1145
BsmFI GGGAC 2 cut(s) 150, 683
BsmI GAATGC 3 cut(s) 365, 630, 1078
BsnI GGCC 3 cut(s) 93, 703, 1143
Bsp119I TTCGAA 2 cut(s) 977, 1010
Bsp1286I GDGCHC 2 cut(s) 546, 1508
Bsp143I GATC 3 cut(s) 178, 1032, 1216
BspANI GGCC 3 cut(s) 93, 703, 1143
BspCNI CTCAG 2 cut(s) 560, 778
BspFNI CGCG 1 cut(s) 261
BspHI TCATGA 1 cut(s) 1612
BspLI GGNNCC 5 cut(s) 166, 406, 754, 1324, 1507
BspQI GCTCTTC 1 cut(s) 1695
BspT104I TTCGAA 2 cut(s) 977, 1010
BspT107I GGYRCC 1 cut(s) 1505
BspTI CTTAAG 1 cut(s) 1694
BsrFI RCCGGY 1 cut(s) 89
BsrI ACTGG 5 cut(s) 461, 704, 997, 1436, 1544
BssAI RCCGGY 1 cut(s) 89
BssECI CCNNGG 2 cut(s) 160, 1041
BssMI GATC 3 cut(s) 178, 1032, 1216
BssNI GRCGYC 2 cut(s) 216, 288
BssT1I CCWWGG 1 cut(s) 1041
Bst4CI ACNGT 4 cut(s) 476, 1003, 1372, 1423
Bst6I CTCTTC 2 cut(s) 1089, 1695
BstACI GRCGYC 2 cut(s) 216, 288
BstAFI CTTAAG 1 cut(s) 1694
BstBI TTCGAA 2 cut(s) 977, 1010
BstC8I GCNNGC 4 cut(s) 91, 205, 447, 1255
BstDEI CTNAG 3 cut(s) 506, 547, 786
BstF5I GGATG 3 cut(s) 1189, 1391, 1561
BstFNI CGCG 1 cut(s) 261
BstH2I RGCGCY 2 cut(s) 85, 776
BstHHI GCGC 3 cut(s) 84, 775, 1658
BstKTI GATC 3 cut(s) 181, 1035, 1219
BstMAI GTCTC 5 cut(s) 62, 298, 328, 992, 1145
BstMBI GATC 3 cut(s) 178, 1032, 1216
BstMWI GCNNNNNNNGC 5 cut(s) 90, 248, 566, 772, 1354
BstNSI RCATGY 2 cut(s) 715, 1257
BstSCI CCNGG 1 cut(s) 659
BstSFI CTRYAG 1 cut(s) 387
BstSLI GKGCMC 1 cut(s) 1508
BstUI CGCG 1 cut(s) 261
BstV1I GCAGC 4 cut(s) 22, 91, 583, 669
BstV2I GAAGAC 1 cut(s) 1266
BsuRI GGCC 3 cut(s) 93, 703, 1143
BtgZI GCGATG 1 cut(s) 1662
BtsCI GGATG 3 cut(s) 1189, 1391, 1561
BtsIMutI CAGTG 3 cut(s) 555, 1419, 1551
Cac8I GCNNGC 4 cut(s) 91, 205, 447, 1255
CciI TCATGA 1 cut(s) 1612
CfoI GCGC 3 cut(s) 84, 775, 1658
Cfr10I RCCGGY 1 cut(s) 89
Cfr13I GGNCC 2 cut(s) 164, 1322
CseI GACGC 1 cut(s) 224
Csp6I GTAC 3 cut(s) 311, 1103, 1119
CviAII CATG 6 cut(s) 712, 746, 1196, 1254, 1500, 1613
CviQI GTAC 3 cut(s) 311, 1103, 1119
DdeI CTNAG 3 cut(s) 506, 547, 786
DpnI GATC 3 cut(s) 180, 1034, 1218
DpnII GATC 3 cut(s) 178, 1032, 1216
EaeI YGGCCR 1 cut(s) 701
Eam1104I CTCTTC 2 cut(s) 1089, 1695
EarI CTCTTC 2 cut(s) 1089, 1695
EciI GGCGGA 1 cut(s) 18
Ecl136II GAGCTC 1 cut(s) 544
Eco130I CCWWGG 1 cut(s) 1041
Eco24I GRGCYC 1 cut(s) 546
Eco47I GGWCC 2 cut(s) 164, 1322
Eco53kI GAGCTC 1 cut(s) 544
EcoICRI GAGCTC 1 cut(s) 544
EcoO109I RGGNCCY 1 cut(s) 1322
EcoRI GAATTC 2 cut(s) 652, 973
EcoT14I CCWWGG 1 cut(s) 1041
EcoT38I GRGCYC 1 cut(s) 546
ErhI CCWWGG 1 cut(s) 1041
Esp3I CGTCTC 2 cut(s) 298, 1145
FaeI CATG 6 cut(s) 715, 749, 1199, 1257, 1503, 1616
FalI AAGNNNNNCTT 1 cut(s) 1744
FaqI GGGAC 2 cut(s) 150, 683
FatI CATG 6 cut(s) 711, 745, 1195, 1253, 1499, 1612
FauI CCCGC 1 cut(s) 212
FblI GTMKAC 1 cut(s) 386
FokI GGATG 3 cut(s) 1196, 1398, 1568
FriOI GRGCYC 1 cut(s) 546
FspBI CTAG 3 cut(s) 426, 1083, 1538
FspI TGCGCA 1 cut(s) 1657
GlaI GCGC 3 cut(s) 83, 774, 1657
GsuI CTGGAG 1 cut(s) 788
HaeII RGCGCY 2 cut(s) 85, 776
HaeIII GGCC 3 cut(s) 93, 703, 1143
HapII CCGG 3 cut(s) 90, 661, 875
HgaI GACGC 1 cut(s) 224
HhaI GCGC 3 cut(s) 84, 775, 1658
Hin1I GRCGYC 2 cut(s) 216, 288
Hin1II CATG 6 cut(s) 715, 749, 1199, 1257, 1503, 1616
Hin6I GCGC 3 cut(s) 82, 773, 1656
HinP1I GCGC 3 cut(s) 82, 773, 1656
HincII GTYRAC 1 cut(s) 1429
HindII GTYRAC 1 cut(s) 1429
HindIII AAGCTT 2 cut(s) 488, 1392
HinfI GANTC 7 cut(s) 301, 338, 671, 1447, 1516, 1559, 1699
HpaII CCGG 3 cut(s) 90, 661, 875
HphI GGTGA 5 cut(s) 97, 143, 978, 1007, 1316
Hpy166II GTNNAC 3 cut(s) 40, 387, 1429
Hpy188I TCNGA 5 cut(s) 67, 343, 397, 691, 1032
Hpy8I GTNNAC 3 cut(s) 40, 387, 1429
Hpy99I CGWCG 4 cut(s) 218, 290, 293, 476
HpyAV CCTTC 5 cut(s) 262, 1295, 1336, 1376, 1678
HpyCH4III ACNGT 4 cut(s) 476, 1003, 1372, 1423
HpyCH4IV ACGT 1 cut(s) 288
HpyF10VI GCNNNNNNNGC 5 cut(s) 90, 248, 566, 772, 1354
HpyF3I CTNAG 3 cut(s) 506, 547, 786
HpySE526I ACGT 1 cut(s) 288
Hsp92I GRCGYC 2 cut(s) 216, 288
Hsp92II CATG 6 cut(s) 715, 749, 1199, 1257, 1503, 1616
HspAI GCGC 3 cut(s) 82, 773, 1656
KroI GCCGGC 1 cut(s) 89
KroNI GCCGGC 1 cut(s) 91
Kzo9I GATC 3 cut(s) 178, 1032, 1216
LguI GCTCTTC 1 cut(s) 1695
LmnI GCTCC 3 cut(s) 404, 752, 904
Lsp1109I GCAGC 4 cut(s) 22, 91, 583, 669
LweI GCATC 4 cut(s) 598, 625, 1174, 1497
MaeI CTAG 3 cut(s) 426, 1083, 1538
MaeII ACGT 1 cut(s) 288
MalI GATC 3 cut(s) 180, 1034, 1218
MboI GATC 3 cut(s) 178, 1032, 1216
MfeI CAATTG 1 cut(s) 1629
MhlI GDGCHC 2 cut(s) 546, 1508
MlsI TGGCCA 1 cut(s) 703
MluNI TGGCCA 1 cut(s) 703
MlyI GAGTC 1 cut(s) 665
MmeI TCCRAC 3 cut(s) 730, 1249, 1647
Mox20I TGGCCA 1 cut(s) 703
MroNI GCCGGC 1 cut(s) 89
MscI TGGCCA 1 cut(s) 703
MseI TTAA 4 cut(s) 486, 1059, 1572, 1695
MslI CAYNNNNRTG 2 cut(s) 440, 1617
Msp20I TGGCCA 1 cut(s) 703
MspA1I CMGCKG 1 cut(s) 34
MspCI CTTAAG 1 cut(s) 1694
MspI CCGG 3 cut(s) 90, 661, 875
MspR9I CCNGG 1 cut(s) 661
MunI CAATTG 1 cut(s) 1629
Mva1269I GAATGC 3 cut(s) 365, 630, 1078
MvnI CGCG 1 cut(s) 261
MwoI GCNNNNNNNGC 5 cut(s) 90, 248, 566, 772, 1354
NaeI GCCGGC 1 cut(s) 91
NciI CCSGG 1 cut(s) 661
NdeII GATC 3 cut(s) 178, 1032, 1216
NgoMIV GCCGGC 1 cut(s) 89
NlaIII CATG 6 cut(s) 715, 749, 1199, 1257, 1503, 1616
NlaIV GGNNCC 5 cut(s) 166, 406, 754, 1324, 1507
NsbI TGCGCA 1 cut(s) 1657
NspI RCATGY 2 cut(s) 715, 1257
NspV TTCGAA 2 cut(s) 977, 1010
PaeI GCATGC 1 cut(s) 1257
PagI TCATGA 1 cut(s) 1612
PciSI GCTCTTC 1 cut(s) 1695
PcsI WCGNNNNNNNCGW 1 cut(s) 93
PctI GAATGC 3 cut(s) 365, 630, 1078
PdiI GCCGGC 1 cut(s) 91
PfeI GAWTC 6 cut(s) 301, 338, 1447, 1516, 1559, 1699
PflFI GACNNNGTC 1 cut(s) 290
PleI GAGTC 1 cut(s) 665
PpsI GAGTC 1 cut(s) 665
PpuMI RGGWCCY 1 cut(s) 1322
Psp124BI GAGCTC 1 cut(s) 546
Psp5II RGGWCCY 1 cut(s) 1322
PspN4I GGNNCC 5 cut(s) 166, 406, 754, 1324, 1507
PspPI GGNCC 2 cut(s) 164, 1322
PspPPI RGGWCCY 1 cut(s) 1322
PsyI GACNNNGTC 1 cut(s) 290
RsaI GTAC 3 cut(s) 312, 1104, 1120
RsaNI GTAC 3 cut(s) 311, 1103, 1119
RseI CAYNNNNRTG 2 cut(s) 440, 1617
SacI GAGCTC 1 cut(s) 546
SapI GCTCTTC 1 cut(s) 1695
SaqAI TTAA 4 cut(s) 486, 1059, 1572, 1695
Sau3AI GATC 3 cut(s) 178, 1032, 1216
Sau96I GGNCC 2 cut(s) 164, 1322
ScaI AGTACT 2 cut(s) 1104, 1120
SchI GAGTC 1 cut(s) 665
ScrFI CCNGG 1 cut(s) 661
SduI GDGCHC 2 cut(s) 546, 1508
SfaNI GCATC 4 cut(s) 598, 625, 1174, 1497
SfcI CTRYAG 1 cut(s) 387
SfuI TTCGAA 2 cut(s) 977, 1010
SinI GGWCC 2 cut(s) 164, 1322
SmiMI CAYNNNNRTG 2 cut(s) 440, 1617
SmlI CTYRAG 2 cut(s) 333, 1694
SmoI CTYRAG 2 cut(s) 333, 1694
SphI GCATGC 1 cut(s) 1257
SspI AATATT 1 cut(s) 1175
SspMI CTAG 3 cut(s) 426, 1083, 1538
SstI GAGCTC 1 cut(s) 546
StyD4I CCNGG 1 cut(s) 659
StyI CCWWGG 1 cut(s) 1041
TaaI ACNGT 4 cut(s) 476, 1003, 1372, 1423
TaiI ACGT 1 cut(s) 291
TaqII GACCGA 1 cut(s) 152
TatI WGTACW 2 cut(s) 1102, 1118
TauI GCSGC 6 cut(s) 34, 210, 251, 261, 278, 281
TfiI GAWTC 6 cut(s) 301, 338, 1447, 1516, 1559, 1699
Tru1I TTAA 4 cut(s) 486, 1059, 1572, 1695
Tru9I TTAA 4 cut(s) 486, 1059, 1572, 1695
TscAI CASTG 3 cut(s) 555, 1426, 1551
TseI GCWGC 4 cut(s) 10, 79, 596, 682
TspDTI ATGAA 6 cut(s) 424, 975, 1107, 1128, 1326, 1572
TspRI CASTG 3 cut(s) 555, 1426, 1551
Tth111I GACNNNGTC 1 cut(s) 290
Vha464I CTTAAG 1 cut(s) 1694
VpaK11BI GGWCC 2 cut(s) 164, 1322
XapI RAATTY 5 cut(s) 499, 602, 652, 973, 1650
XceI RCATGY 2 cut(s) 715, 1257
XcmI CCANNNNNNNNNTGG 1 cut(s) 763
XmiI GTMKAC 1 cut(s) 386
XspI CTAG 3 cut(s) 426, 1083, 1538
ZraI GACGTC 1 cut(s) 289
ZrmI AGTACT 2 cut(s) 1104, 1120
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.