Rorug06G0324100

Hippocampus abundant transcript 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0009793
Physical Location & Seq
Forward (+)
47509319 .. 47513248
3930 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0324100.1

Sequence Viewer

Length: 1038 bp
ATGTCTGAACTGATTGAAGGTCTTCCTGACGCCGTTGCCCTTAGGTGCCTTGCTTGGGTTCCCTTCCATCTCCATCCTAAGTTGGAGCTTGTTTCCCGTTCCTGGAAAGCTGCAATTCATAGCCCTGAACTGTTTAGAGCTCGACAGGAGCTTGGCTCATGTGAAGATTTATTATGTGTGTCTGCTTTTGATCCAGAGAATTTATGGCAGCTGTATGACCCTCTTCGAGACCTTTGGATTACACTCCCTGTTCTCCCTTCTAGAATTAAAATCCTTTCTAATTTCGGTGCTGTCTCCACTGCTGGAAAGCTGTTTGTGCTTGGTGGTGGTAGTGGTGCTGTTGACCCACAGACCGGTGACCAAGATGGGAGTTTTGCAACCAATGAGGTGTGGTCATATGACCCTGTAATTAGGCAATGGAACTCACGTGCATCTATGCTTGTGCCTCGTGCAATGTTTGCATGCTGTGTTTTAGATGGAAAAATTGTTGTTGCTGGCGGTTTTACCAGCTGTCGAAGGTCAATTTCTCAAGCAGAAATGTATGACCCTGACAAGGATGTGTGGATTCCAATACCTGATCTCCATCGTACTCATAATTCGGCATGCTCAGGAATAGCGATCAGAGGAAAGGTGCACGTCTTGCACAAGGGTTTATCAACGGTGCAAGTCTTAGACAATGTGGTGAATGGGTGGACTGTAGAGGATTATGGTTGGCAACAGGGTCCAATGACGGTTGTTAAGGGTGCACTTTATGTGATGAGCAACGGACTCATCTGCAAGCAAGACAGGGAAGTGAGGAAGGTTTTGGTTTCAGCATCTGAGATTGGTCGCAGAATTGGGTTTGCAATGACTGGACTTGGGGATGAAATTTATTTGATTGGTGGGGTGATTATCCCTGATCAGTGGAACTTGGAGATCAAGCCAATGTCTGATGTTGATGTTCTGACAATTGGGGGTGAAAGGCCTACTTGGCGCCAGGCAGCTGCAATGACACGGTGCCGTGGAACTATTCTTGGTTGTACACAGTTGAGAATTTAG
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
MFS_1

Protein Analysis

345

Amino Acids

38.03

Weight (kDa)

6.39

Isoelectric Point (pI)

44.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Kelch_KLHDC2_KLHL20_DRC7 PF24681 77 - 193 4.6e-07 KLHDC2/KLHL20/DRC7 Kelch-repeats domain
Beta-prop_Calicin PF13964 77 - 194 1.6e-08 Calicin, beta-propeller domain
Kelch_1 PF01344 93 - 146 4e-06 Kelch motif
Kelch_FKB95 PF25210 126 - 258 2.1e-13 FKB95, Kelch-repeats domain
Kelch_1 PF01344 149 - 194 1.7e-12 Kelch motif
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 3 cut(s) 45, 972, 996
AciI CCGC 1 cut(s) 498
AclWI GGATC 1 cut(s) 185
AcsI RAATTY 3 cut(s) 199, 867, 1032
AcvI CACGTG 1 cut(s) 428
AcyI GRCGYC 2 cut(s) 30, 973
AfaI GTAC 2 cut(s) 589, 1021
AfiI CCNNNNNNNGG 4 cut(s) 55, 102, 353, 553
AgeI ACCGGT 1 cut(s) 353
AgsI TTSAA 1 cut(s) 17
AjiI CACGTC 1 cut(s) 637
AjnI CCWGG 2 cut(s) 101, 975
AluBI AGCT 8 cut(s) 88, 110, 140, 151, 211, 310, 510, 983
AluI AGCT 8 cut(s) 88, 110, 140, 151, 211, 310, 510, 983
Alw21I GWGCWC 3 cut(s) 142, 636, 748
Alw26I GTCTC 2 cut(s) 222, 298
Alw44I GTGCAC 2 cut(s) 632, 744
AlwI GGATC 1 cut(s) 185
AlwNI CAGNNNCTG 1 cut(s) 818
AoxI GGCC 1 cut(s) 962
ApaLI GTGCAC 2 cut(s) 632, 744
ApeKI GCWGC 4 cut(s) 110, 208, 980, 983
ApoI RAATTY 3 cut(s) 199, 867, 1032
AsiGI ACCGGT 1 cut(s) 353
Asp700I GAANNNNTTC 1 cut(s) 21
AspLEI GCGC 1 cut(s) 975
AspS9I GGNCC 1 cut(s) 722
AsuHPI GGTGA 4 cut(s) 368, 694, 898, 968
AvaII GGWCC 1 cut(s) 722
AxyI CCTNAGG 1 cut(s) 41
BaeGI GKGCMC 2 cut(s) 636, 748
BanI GGYRCC 3 cut(s) 45, 972, 996
BanII GRGCYC 1 cut(s) 142
BauI CACGAG 1 cut(s) 447
BbrPI CACGTG 1 cut(s) 428
BbsI GAAGAC 1 cut(s) 14
Bbv12I GWGCWC 3 cut(s) 142, 636, 748
BbvI GCAGC 4 cut(s) 97, 220, 970, 992
BccI CCATC 5 cut(s) 75, 81, 359, 470, 591
BceAI ACGGC 2 cut(s) 17, 984
BciT130I CCWGG 2 cut(s) 103, 977
BclI TGATCA 1 cut(s) 898
BcoDI GTCTC 2 cut(s) 222, 298
BfaI CTAG 1 cut(s) 261
BfmI CTRYAG 1 cut(s) 696
BfoI RGCGCY 1 cut(s) 976
BglI GCCNNNNNGGC 1 cut(s) 970
BisI GCNGC 4 cut(s) 111, 209, 981, 984
BlsI GCNGC 4 cut(s) 112, 210, 982, 985
Bme1390I CCNGG 2 cut(s) 103, 977
Bme18I GGWCC 1 cut(s) 722
BmgBI CACGTC 1 cut(s) 637
BmgT120I GGNCC 1 cut(s) 722
BmiI GGNNCC 5 cut(s) 47, 60, 723, 974, 998
BmrFI CCNGG 2 cut(s) 103, 977
BmsI GCATC 2 cut(s) 440, 824
BpiI GAAGAC 1 cut(s) 14
BplI GAGNNNNNCTC 2 cut(s) 140, 172
Bpu10I CCTNAGC 1 cut(s) 607
BpuEI CTTGAG 1 cut(s) 513
BsaAI YACGTR 1 cut(s) 428
BsaBI GATNNNNATC 1 cut(s) 582
BsaHI GRCGYC 2 cut(s) 30, 973
BsaI GGTCTC 1 cut(s) 222
BsaJI CCNNGG 1 cut(s) 1000
BsaWI WCCGGW 1 cut(s) 353
BsaXI ACNNNNNCTCC 2 cut(s) 564, 594
Bsc4I CCNNNNNNNGG 4 cut(s) 55, 102, 353, 553
Bse118I RCCGGY 1 cut(s) 353
Bse1I ACTGG 1 cut(s) 856
Bse21I CCTNAGG 1 cut(s) 41
Bse3DI GCAATG 4 cut(s) 422, 459, 852, 993
Bse8I GATNNNNATC 1 cut(s) 582
BseBI CCWGG 2 cut(s) 103, 977
BseDI CCNNGG 1 cut(s) 1000
BseGI GGATG 3 cut(s) 73, 562, 868
BseJI GATNNNNATC 1 cut(s) 582
BseLI CCNNNNNNNGG 4 cut(s) 55, 102, 353, 553
BseMI GCAATG 4 cut(s) 422, 459, 852, 993
BseMII CTCAG 2 cut(s) 621, 810
BseNI ACTGG 1 cut(s) 856
BseSI GKGCMC 2 cut(s) 636, 748
BseXI GCAGC 4 cut(s) 97, 220, 970, 992
BshFI GGCC 1 cut(s) 964
BshNI GGYRCC 3 cut(s) 45, 972, 996
BshTI ACCGGT 1 cut(s) 353
BsiHKAI GWGCWC 3 cut(s) 142, 636, 748
BsiSI CCGG 1 cut(s) 354
BslI CCNNNNNNNGG 4 cut(s) 55, 102, 353, 553
BsmAI GTCTC 2 cut(s) 222, 298
BsnI GGCC 1 cut(s) 964
Bso31I GGTCTC 1 cut(s) 222
Bsp1286I GDGCHC 3 cut(s) 142, 636, 748
Bsp1407I TGTACA 1 cut(s) 1019
Bsp143I GATC 5 cut(s) 190, 577, 618, 898, 915
BspACI CCGC 1 cut(s) 498
BspANI GGCC 1 cut(s) 964
BspCNI CTCAG 2 cut(s) 620, 811
BspLI GGNNCC 5 cut(s) 47, 60, 723, 974, 998
BspPI GGATC 1 cut(s) 185
BspT107I GGYRCC 3 cut(s) 45, 972, 996
BspTNI GGTCTC 1 cut(s) 222
BsrDI GCAATG 4 cut(s) 422, 459, 852, 993
BsrFI RCCGGY 1 cut(s) 353
BsrGI TGTACA 1 cut(s) 1019
BsrI ACTGG 1 cut(s) 856
BssAI RCCGGY 1 cut(s) 353
BssECI CCNNGG 1 cut(s) 1000
BssMI GATC 5 cut(s) 190, 577, 618, 898, 915
BssNI GRCGYC 2 cut(s) 30, 973
BssSI CACGAG 1 cut(s) 447
Bst2BI CACGAG 1 cut(s) 447
Bst2UI CCWGG 2 cut(s) 103, 977
Bst4CI ACNGT 6 cut(s) 132, 661, 697, 733, 996, 1026
Bst6I CTCTTC 1 cut(s) 228
BstACI GRCGYC 2 cut(s) 30, 973
BstAPI GCANNNNNTGC 2 cut(s) 458, 640
BstAUI TGTACA 1 cut(s) 1019
BstBAI YACGTR 1 cut(s) 428
BstC8I GCNNGC 4 cut(s) 463, 496, 604, 779
BstDEI CTNAG 5 cut(s) 41, 78, 607, 670, 819
BstDSI CCRYGG 1 cut(s) 1000
BstEII GGTNACC 1 cut(s) 356
BstF5I GGATG 3 cut(s) 73, 562, 868
BstH2I RGCGCY 1 cut(s) 976
BstHHI GCGC 1 cut(s) 975
BstKTI GATC 5 cut(s) 193, 580, 621, 901, 918
BstMAI GTCTC 2 cut(s) 222, 298
BstMBI GATC 5 cut(s) 190, 577, 618, 898, 915
BstMWI GCNNNNNNNGC 4 cut(s) 316, 458, 640, 970
BstNI CCWGG 2 cut(s) 103, 977
BstNSI RCATGY 2 cut(s) 465, 606
BstPI GGTNACC 1 cut(s) 356
BstSCI CCNGG 2 cut(s) 101, 975
BstSFI CTRYAG 1 cut(s) 696
BstSLI GKGCMC 2 cut(s) 636, 748
BstV1I GCAGC 4 cut(s) 97, 220, 970, 992
BstV2I GAAGAC 1 cut(s) 14
Bsu36I CCTNAGG 1 cut(s) 41
BsuRI GGCC 1 cut(s) 964
BtgI CCRYGG 1 cut(s) 1000
BtrI CACGTC 1 cut(s) 637
BtsCI GGATG 3 cut(s) 73, 562, 868
BtsI GCAGTG 1 cut(s) 297
BtsIMutI CAGTG 2 cut(s) 297, 908
Cac8I GCNNGC 4 cut(s) 463, 496, 604, 779
CaiI CAGNNNCTG 1 cut(s) 818
CfoI GCGC 1 cut(s) 975
Cfr10I RCCGGY 1 cut(s) 353
Cfr13I GGNCC 1 cut(s) 722
CseI GACGC 1 cut(s) 38
Csp6I GTAC 2 cut(s) 588, 1020
CspAI ACCGGT 1 cut(s) 353
CviAII CATG 3 cut(s) 159, 462, 603
CviQI GTAC 2 cut(s) 588, 1020
DdeI CTNAG 5 cut(s) 41, 78, 607, 670, 819
DinI GGCGCC 1 cut(s) 974
DpnI GATC 5 cut(s) 192, 579, 620, 900, 917
DpnII GATC 5 cut(s) 190, 577, 618, 898, 915
Eam1104I CTCTTC 1 cut(s) 228
EarI CTCTTC 1 cut(s) 228
Ecl136II GAGCTC 1 cut(s) 140
Eco147I AGGCCT 1 cut(s) 964
Eco24I GRGCYC 1 cut(s) 142
Eco31I GGTCTC 1 cut(s) 222
Eco47I GGWCC 1 cut(s) 722
Eco53kI GAGCTC 1 cut(s) 140
Eco72I CACGTG 1 cut(s) 428
Eco81I CCTNAGG 1 cut(s) 41
Eco91I GGTNACC 1 cut(s) 356
EcoICRI GAGCTC 1 cut(s) 140
EcoO65I GGTNACC 1 cut(s) 356
EcoRII CCWGG 2 cut(s) 101, 975
EcoT38I GRGCYC 1 cut(s) 142
EgeI GGCGCC 1 cut(s) 974
EheI GGCGCC 1 cut(s) 974
FaeI CATG 3 cut(s) 162, 465, 606
FalI AAGNNNNNCTT 2 cut(s) 952, 984
FatI CATG 3 cut(s) 158, 461, 602
FauNDI CATATG 1 cut(s) 397
FbaI TGATCA 1 cut(s) 898
Fnu4HI GCNGC 4 cut(s) 111, 209, 981, 984
FokI GGATG 3 cut(s) 60, 569, 875
FriOI GRGCYC 1 cut(s) 142
Fsp4HI GCNGC 4 cut(s) 111, 209, 981, 984
FspBI CTAG 1 cut(s) 261
GlaI GCGC 1 cut(s) 974
GluI GCNGC 4 cut(s) 111, 209, 981, 984
HaeII RGCGCY 1 cut(s) 976
HaeIII GGCC 1 cut(s) 964
HapII CCGG 1 cut(s) 354
HgaI GACGC 1 cut(s) 38
HhaI GCGC 1 cut(s) 975
Hin1I GRCGYC 2 cut(s) 30, 973
Hin1II CATG 3 cut(s) 162, 465, 606
Hin6I GCGC 1 cut(s) 973
HinP1I GCGC 1 cut(s) 973
HincII GTYRAC 1 cut(s) 343
HindII GTYRAC 1 cut(s) 343
HinfI GANTC 2 cut(s) 565, 768
HpaII CCGG 1 cut(s) 354
HphI GGTGA 4 cut(s) 368, 694, 898, 968
Hpy166II GTNNAC 5 cut(s) 343, 634, 693, 746, 1022
Hpy188I TCNGA 5 cut(s) 7, 623, 820, 931, 945
Hpy188III TCNNGA 5 cut(s) 26, 194, 227, 261, 609
Hpy8I GTNNAC 5 cut(s) 343, 634, 693, 746, 1022
HpyAV CCTTC 5 cut(s) 11, 73, 267, 510, 793
HpyCH4III ACNGT 6 cut(s) 132, 661, 697, 733, 996, 1026
HpyCH4IV ACGT 2 cut(s) 427, 636
HpyF10VI GCNNNNNNNGC 4 cut(s) 316, 458, 640, 970
HpyF3I CTNAG 5 cut(s) 41, 78, 607, 670, 819
HpySE526I ACGT 2 cut(s) 427, 636
Hsp92I GRCGYC 2 cut(s) 30, 973
Hsp92II CATG 3 cut(s) 162, 465, 606
HspAI GCGC 1 cut(s) 973
KasI GGCGCC 1 cut(s) 972
Ksp22I TGATCA 1 cut(s) 898
Kzo9I GATC 5 cut(s) 190, 577, 618, 898, 915
LmnI GCTCC 2 cut(s) 85, 148
Lsp1109I GCAGC 4 cut(s) 97, 220, 970, 992
LweI GCATC 2 cut(s) 440, 824
MaeI CTAG 1 cut(s) 261
MaeII ACGT 2 cut(s) 427, 636
MaeIII GTNAC 1 cut(s) 356
MalI GATC 5 cut(s) 192, 579, 620, 900, 917
MboI GATC 5 cut(s) 190, 577, 618, 898, 915
MboII GAAGA 3 cut(s) 14, 176, 215
MfeI CAATTG 1 cut(s) 948
MhlI GDGCHC 3 cut(s) 142, 636, 748
Mly113I GGCGCC 1 cut(s) 973
MlyI GAGTC 1 cut(s) 762
MmeI TCCRAC 1 cut(s) 63
MnlI CCTC 6 cut(s) 231, 379, 456, 617, 694, 789
MroXI GAANNNNTTC 1 cut(s) 21
MseI TTAA 2 cut(s) 267, 738
MspA1I CMGCKG 3 cut(s) 211, 510, 983
MspI CCGG 1 cut(s) 354
MspR9I CCNGG 2 cut(s) 103, 977
MunI CAATTG 1 cut(s) 948
MvaI CCWGG 2 cut(s) 103, 977
MwoI GCNNNNNNNGC 4 cut(s) 316, 458, 640, 970
NarI GGCGCC 1 cut(s) 973
NdeI CATATG 1 cut(s) 397
NdeII GATC 5 cut(s) 190, 577, 618, 898, 915
NlaIII CATG 3 cut(s) 162, 465, 606
NlaIV GGNNCC 5 cut(s) 47, 60, 723, 974, 998
NmuCI GTSAC 1 cut(s) 356
NspI RCATGY 2 cut(s) 465, 606
PaeI GCATGC 2 cut(s) 465, 606
PceI AGGCCT 1 cut(s) 964
PdmI GAANNNNTTC 1 cut(s) 21
PfeI GAWTC 1 cut(s) 565
PfoI TCCNGGA 1 cut(s) 101
PinAI ACCGGT 1 cut(s) 353
PkrI GCNGC 4 cut(s) 112, 210, 982, 985
PleI GAGTC 1 cut(s) 762
PluTI GGCGCC 1 cut(s) 976
PmaCI CACGTG 1 cut(s) 428
PmlI CACGTG 1 cut(s) 428
PpsI GAGTC 1 cut(s) 762
Ppu21I YACGTR 1 cut(s) 428
Psp124BI GAGCTC 1 cut(s) 142
Psp6I CCWGG 2 cut(s) 101, 975
PspCI CACGTG 1 cut(s) 428
PspEI GGTNACC 1 cut(s) 356
PspGI CCWGG 2 cut(s) 101, 975
PspN4I GGNNCC 5 cut(s) 47, 60, 723, 974, 998
PspPI GGNCC 1 cut(s) 722
PstNI CAGNNNCTG 1 cut(s) 818
PvuII CAGCTG 3 cut(s) 211, 510, 983
RsaI GTAC 2 cut(s) 589, 1021
RsaNI GTAC 2 cut(s) 588, 1020
SacI GAGCTC 1 cut(s) 142
SaqAI TTAA 2 cut(s) 267, 738
SatI GCNGC 4 cut(s) 111, 209, 981, 984
Sau3AI GATC 5 cut(s) 190, 577, 618, 898, 915
Sau96I GGNCC 1 cut(s) 722
SchI GAGTC 1 cut(s) 762
ScrFI CCNGG 2 cut(s) 103, 977
SduI GDGCHC 3 cut(s) 142, 636, 748
SfaNI GCATC 2 cut(s) 440, 824
SfcI CTRYAG 1 cut(s) 696
SfoI GGCGCC 1 cut(s) 974
SinI GGWCC 1 cut(s) 722
SmlI CTYRAG 1 cut(s) 528
SmoI CTYRAG 1 cut(s) 528
SphI GCATGC 2 cut(s) 465, 606
SseBI AGGCCT 1 cut(s) 964
SsiI CCGC 1 cut(s) 498
SspDI GGCGCC 1 cut(s) 972
SspMI CTAG 1 cut(s) 261
SstI GAGCTC 1 cut(s) 142
StuI AGGCCT 1 cut(s) 964
StyD4I CCNGG 2 cut(s) 101, 975
TaaI ACNGT 6 cut(s) 132, 661, 697, 733, 996, 1026
TaiI ACGT 2 cut(s) 430, 639
TaqI TCGA 3 cut(s) 142, 226, 514
TatI WGTACW 1 cut(s) 1019
TfiI GAWTC 1 cut(s) 565
Tru1I TTAA 2 cut(s) 267, 738
Tru9I TTAA 2 cut(s) 267, 738
TscAI CASTG 2 cut(s) 304, 908
TseFI GTSAC 1 cut(s) 356
TseI GCWGC 4 cut(s) 110, 208, 980, 983
Tsp45I GTSAC 1 cut(s) 356
TspDTI ATGAA 2 cut(s) 107, 879
TspGWI ACGGA 1 cut(s) 780
TspRI CASTG 2 cut(s) 304, 908
VneI GTGCAC 2 cut(s) 632, 744
VpaK11BI GGWCC 1 cut(s) 722
XapI RAATTY 3 cut(s) 199, 867, 1032
XbaI TCTAGA 1 cut(s) 260
XceI RCATGY 2 cut(s) 465, 606
XcmI CCANNNNNNNNNTGG 1 cut(s) 201
XmnI GAANNNNTTC 1 cut(s) 21
XspI CTAG 1 cut(s) 261
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.