Rw6G037940

Hippocampus abundant transcript 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0009793
Physical Location & Seq
Forward (+)
62168240 .. 62175076
6837 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G037940.1

Sequence Viewer

Length: 1341 bp
ATGGAGAAGTTATCACCAGGGGGGCTCAGCCACCTTTACATGACGATCTTTCTGCACAACTTCGCGACGTTCATGGTGATCCCGGCCATTACCGACGTTACAATGACTGCGCTTTGTCCCGGAAGAGACGAGTGCTCTATCGCTATTTACCTCACCGGATTTCAACAAGCGGTATATCGTAGGCTGGGAACACTGGTGATGATGCCTTTGGTAGGGAATCTCTCAGACAAATGTGGGAGAAAAGCTCTGCTCACACTACCAATGATTTTCACTATAATCCCCTTAGGAATATTAGCCTACAGCAGGACTAGGAATTTCTTCTATGCGTACTTTGTGGCCAAGACTCTCACCGCCATGGTCTGCGAAGGCAGCGTTCACTGCCTCGCCCTTGCCTATGTGGCGGATAATGTTCCAGAAGGACGACGAGCCTCGACGTTTGGAATTCTATCAGGGATTAGTTCCTCTGCCTTCGTCTGCGGAACCCTATTTACTCGTTTTGTATCCACTACCTCAATGTTTCAGGTGGCGACAACGGTGGCGGTTGTAGCAGTAGTGTACATGAGGATTTTCCTACCGGATTCGATTATAGACGATAACATTTCCGCTCCATTGCTCTCAAATGAAAACCCAAAAGTTTCGAATTCGGATGAAAATTCAAATGCGGAATTGCAGTCCTCTACAGCTTTACCTTCATTACCTGATATAATCGCATTGTTGAAAACTAGCCCTACATTTTCCCAAGCTGCAATTGTTGCGTTTTTCAGCCACCTGGCCGATGTTGGCCTTCATGCTTCACTATTGTATTATTTAAAGGCCCGGTTTCACTTCAACAAGGATCAGTTTGCTGACCTAATGGTGATTTCGGGGGTTGCAGGCACTATTTCACAGTTGGTTCTCATGCCGTTACTGGCTCCTGTTTTAGGAGAGGAGAGGTTACTTTCGATAGGGCTTCTTTTTGGCTGTGCACATATGTTTTTTTATGGCCTTGCGTGGTCCTTCTGGGTTCCGTATGCTGCTGCTATGTTCTCTATCTTTTTTGTGTTTGCACAGCCATGTATGCGAAGCATTGTATCTAAACAAGTTGGGCCGTCTGAGCAGGGAAAGGCTCAAGGGTGCATTTCAGGCATATGCTCCTTTGCAAATGTTATATCTCCCTTTGCTTTCTCTCCTCTAACAGCTTTGTTCCTGTCTGAAAAGGCGCCATTTAATTTTCCTGGTTTTAGTATCACATGCGTTGGATTTGCTGCGATGATAGCCTTTATTCAAAGCGTGATGATAAAGGCTGCTCCTCCCATATCAAGTGAACGGGTCAGCAGCAATTGCAATTACATGGAACCCTAG
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

446

Amino Acids

48.35

Weight (kDa)

7.51

Isoelectric Point (pI)

41.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MFS_1 PF07690 13 - 385 4.8e-25 Major Facilitator Superfamily
MFS_1 PF07690 251 - 418 1.9e-08 Major Facilitator Superfamily
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 1 cut(s) 1198
AccBSI CCGCTC 1 cut(s) 605
AccII CGCG 1 cut(s) 65
AciI CCGC 7 cut(s) 170, 351, 401, 477, 539, 603, 662
AclWI GGATC 2 cut(s) 73, 843
AcoI YGGCCR 3 cut(s) 84, 336, 771
AcsI RAATTY 4 cut(s) 313, 441, 640, 652
AcyI GRCGYC 1 cut(s) 1199
AfaI GTAC 2 cut(s) 329, 557
AfiI CCNNNNNNNGG 3 cut(s) 212, 303, 920
AgsI TTSAA 5 cut(s) 164, 657, 718, 829, 1265
AjnI CCWGG 3 cut(s) 16, 768, 1213
AluBI AGCT 4 cut(s) 245, 683, 743, 1178
AluI AGCT 4 cut(s) 245, 683, 743, 1178
Alw21I GWGCWC 2 cut(s) 137, 967
Alw26I GTCTC 1 cut(s) 120
Alw44I GTGCAC 1 cut(s) 963
AlwI GGATC 2 cut(s) 73, 843
AoxI GGCC 7 cut(s) 84, 336, 771, 781, 813, 982, 1085
ApaLI GTGCAC 1 cut(s) 963
ApeKI GCWGC 7 cut(s) 369, 743, 1013, 1016, 1244, 1283, 1314
ApoI RAATTY 4 cut(s) 313, 441, 640, 652
Asp700I GAANNNNTTC 1 cut(s) 317
AspLEI GCGC 2 cut(s) 112, 1201
AspS9I GGNCC 3 cut(s) 814, 993, 1085
AsuC2I CCSGG 3 cut(s) 83, 120, 817
AsuHPI GGTGA 6 cut(s) 6, 88, 145, 208, 340, 868
AsuII TTCGAA 1 cut(s) 638
AvaII GGWCC 1 cut(s) 993
AxyI CCTNAGG 1 cut(s) 283
BaeGI GKGCMC 1 cut(s) 967
BalI TGGCCA 1 cut(s) 338
BanI GGYRCC 1 cut(s) 1198
BanII GRGCYC 1 cut(s) 27
Bbv12I GWGCWC 2 cut(s) 137, 967
BbvI GCAGC 7 cut(s) 381, 730, 1000, 1003, 1231, 1270, 1326
BceAI ACGGC 2 cut(s) 886, 1072
BcgI CGANNNNNNTGC 2 cut(s) 34, 68
BciT130I CCWGG 3 cut(s) 18, 770, 1215
BciVI GTATCC 1 cut(s) 511
BcnI CCSGG 3 cut(s) 83, 120, 817
BcoDI GTCTC 1 cut(s) 120
BfaI CTAG 3 cut(s) 309, 723, 1339
BfmI CTRYAG 2 cut(s) 298, 678
BfoI RGCGCY 1 cut(s) 1202
BfuI GTATCC 1 cut(s) 511
BglI GCCNNNNNGGC 1 cut(s) 398
BisI GCNGC 7 cut(s) 370, 744, 1014, 1017, 1245, 1284, 1315
BlpI GCTNAGC 1 cut(s) 26
BlsI GCNGC 7 cut(s) 371, 745, 1015, 1018, 1246, 1285, 1316
Bme1390I CCNGG 6 cut(s) 18, 83, 120, 770, 817, 1215
Bme18I GGWCC 1 cut(s) 993
BmgT120I GGNCC 3 cut(s) 814, 993, 1085
BmiI GGNNCC 5 cut(s) 481, 912, 1005, 1200, 1335
BmrFI CCNGG 6 cut(s) 18, 83, 120, 770, 817, 1215
BmsI GCATC 1 cut(s) 192
BplI GAGNNNNNCTC 2 cut(s) 229, 261
Bpu1102I GCTNAGC 1 cut(s) 26
Bpu14I TTCGAA 1 cut(s) 638
BpuEI CTTGAG 1 cut(s) 1092
BpuMI CCSGG 3 cut(s) 83, 120, 817
BsaHI GRCGYC 1 cut(s) 1199
BsaJI CCNNGG 2 cut(s) 17, 354
BsaWI WCCGGW 2 cut(s) 155, 574
Bsc4I CCNNNNNNNGG 3 cut(s) 212, 303, 920
Bse1I ACTGG 2 cut(s) 198, 912
Bse21I CCTNAGG 1 cut(s) 283
Bse3DI GCAATG 1 cut(s) 608
BseBI CCWGG 3 cut(s) 18, 770, 1215
BseDI CCNNGG 2 cut(s) 17, 354
BseGI GGATG 1 cut(s) 652
BseLI CCNNNNNNNGG 3 cut(s) 212, 303, 920
BseMI GCAATG 1 cut(s) 608
BseMII CTCAG 3 cut(s) 40, 237, 1083
BseNI ACTGG 2 cut(s) 198, 912
BseRI GAGGAG 3 cut(s) 941, 1158, 1278
BseSI GKGCMC 1 cut(s) 967
BseXI GCAGC 7 cut(s) 381, 730, 1000, 1003, 1231, 1270, 1326
BseYI CCCAGC 1 cut(s) 184
BsgI GTGCAG 1 cut(s) 38
Bsh1236I CGCG 1 cut(s) 65
BshFI GGCC 7 cut(s) 86, 338, 773, 783, 815, 984, 1087
BshNI GGYRCC 1 cut(s) 1198
BsiHKAI GWGCWC 2 cut(s) 137, 967
BsiSI CCGG 5 cut(s) 83, 120, 156, 575, 817
BslFI GGGAC 1 cut(s) 102
BslI CCNNNNNNNGG 3 cut(s) 212, 303, 920
BsmAI GTCTC 1 cut(s) 120
BsmBI CGTCTC 1 cut(s) 120
BsmFI GGGAC 1 cut(s) 102
BsnI GGCC 7 cut(s) 86, 338, 773, 783, 815, 984, 1087
Bsp119I TTCGAA 1 cut(s) 638
Bsp1286I GDGCHC 3 cut(s) 27, 137, 967
Bsp1407I TGTACA 1 cut(s) 555
Bsp143I GATC 3 cut(s) 45, 78, 835
Bsp1720I GCTNAGC 1 cut(s) 26
Bsp19I CCATGG 1 cut(s) 354
Bsp68I TCGCGA 1 cut(s) 65
BspACI CCGC 7 cut(s) 170, 351, 401, 477, 539, 603, 662
BspANI GGCC 7 cut(s) 86, 338, 773, 783, 815, 984, 1087
BspCNI CTCAG 3 cut(s) 39, 236, 1084
BspFNI CGCG 1 cut(s) 65
BspLI GGNNCC 5 cut(s) 481, 912, 1005, 1200, 1335
BspPI GGATC 2 cut(s) 73, 843
BspT104I TTCGAA 1 cut(s) 638
BspT107I GGYRCC 1 cut(s) 1198
BsrBI CCGCTC 1 cut(s) 605
BsrDI GCAATG 1 cut(s) 608
BsrGI TGTACA 1 cut(s) 555
BsrI ACTGG 2 cut(s) 198, 912
BssECI CCNNGG 2 cut(s) 17, 354
BssMI GATC 3 cut(s) 45, 78, 835
BssNI GRCGYC 1 cut(s) 1199
BssT1I CCWWGG 1 cut(s) 354
Bst2UI CCWGG 3 cut(s) 18, 770, 1215
Bst4CI ACNGT 2 cut(s) 535, 888
Bst6I CTCTTC 1 cut(s) 118
BstACI GRCGYC 1 cut(s) 1199
BstAPI GCANNNNNTGC 2 cut(s) 752, 1320
BstAUI TGTACA 1 cut(s) 555
BstBI TTCGAA 1 cut(s) 638
BstC8I GCNNGC 1 cut(s) 874
BstDEI CTNAG 4 cut(s) 26, 223, 283, 1092
BstDSI CCRYGG 1 cut(s) 354
BstENI CCTNNNNNAGG 3 cut(s) 210, 301, 918
BstF5I GGATG 1 cut(s) 652
BstFNI CGCG 1 cut(s) 65
BstH2I RGCGCY 1 cut(s) 1202
BstHHI GCGC 2 cut(s) 112, 1201
BstKTI GATC 3 cut(s) 48, 81, 838
BstMAI GTCTC 1 cut(s) 120
BstMBI GATC 3 cut(s) 45, 78, 835
BstNI CCWGG 3 cut(s) 18, 770, 1215
BstNSI RCATGY 1 cut(s) 1233
BstSCI CCNGG 6 cut(s) 16, 81, 118, 768, 815, 1213
BstSFI CTRYAG 2 cut(s) 298, 678
BstSLI GKGCMC 1 cut(s) 967
BstUI CGCG 1 cut(s) 65
BstV1I GCAGC 7 cut(s) 381, 730, 1000, 1003, 1231, 1270, 1326
Bsu36I CCTNAGG 1 cut(s) 283
BsuI GTATCC 1 cut(s) 511
BsuRI GGCC 7 cut(s) 86, 338, 773, 783, 815, 984, 1087
BtgI CCRYGG 1 cut(s) 354
BtgZI GCGATG 1 cut(s) 1262
BtsCI GGATG 1 cut(s) 652
BtsI GCAGTG 1 cut(s) 376
BtsIMutI CAGTG 2 cut(s) 191, 376
BtuMI TCGCGA 1 cut(s) 65
Cac8I GCNNGC 1 cut(s) 874
CfoI GCGC 2 cut(s) 112, 1201
Cfr13I GGNCC 3 cut(s) 814, 993, 1085
Csp6I GTAC 2 cut(s) 328, 556
CviAII CATG 9 cut(s) 40, 73, 355, 559, 788, 898, 1053, 1230, 1330
CviQI GTAC 2 cut(s) 328, 556
DdeI CTNAG 4 cut(s) 26, 223, 283, 1092
DinI GGCGCC 1 cut(s) 1200
DpnI GATC 3 cut(s) 47, 80, 837
DpnII GATC 3 cut(s) 45, 78, 835
DraI TTTAAA 1 cut(s) 810
EaeI YGGCCR 3 cut(s) 84, 336, 771
Eam1104I CTCTTC 1 cut(s) 118
EarI CTCTTC 1 cut(s) 118
EciI GGCGGA 1 cut(s) 416
Eco130I CCWWGG 1 cut(s) 354
Eco24I GRGCYC 1 cut(s) 27
Eco47I GGWCC 1 cut(s) 993
Eco81I CCTNAGG 1 cut(s) 283
EcoNI CCTNNNNNAGG 3 cut(s) 210, 301, 918
EcoRI GAATTC 2 cut(s) 441, 640
EcoRII CCWGG 3 cut(s) 16, 768, 1213
EcoT14I CCWWGG 1 cut(s) 354
EcoT38I GRGCYC 1 cut(s) 27
EgeI GGCGCC 1 cut(s) 1200
EheI GGCGCC 1 cut(s) 1200
ErhI CCWWGG 1 cut(s) 354
Esp3I CGTCTC 1 cut(s) 120
FaeI CATG 9 cut(s) 43, 76, 358, 562, 791, 901, 1056, 1233, 1333
FaqI GGGAC 1 cut(s) 102
FatI CATG 9 cut(s) 39, 72, 354, 558, 787, 897, 1052, 1229, 1329
FauNDI CATATG 2 cut(s) 969, 1127
Fnu4HI GCNGC 7 cut(s) 370, 744, 1014, 1017, 1245, 1284, 1315
FokI GGATG 1 cut(s) 659
FriOI GRGCYC 1 cut(s) 27
Fsp4HI GCNGC 7 cut(s) 370, 744, 1014, 1017, 1245, 1284, 1315
FspBI CTAG 3 cut(s) 309, 723, 1339
GlaI GCGC 2 cut(s) 111, 1200
GluI GCNGC 7 cut(s) 370, 744, 1014, 1017, 1245, 1284, 1315
GsaI CCCAGC 1 cut(s) 188
HaeII RGCGCY 1 cut(s) 1202
HaeIII GGCC 7 cut(s) 86, 338, 773, 783, 815, 984, 1087
HapII CCGG 5 cut(s) 83, 120, 156, 575, 817
HhaI GCGC 2 cut(s) 112, 1201
Hin1I GRCGYC 1 cut(s) 1199
Hin1II CATG 9 cut(s) 43, 76, 358, 562, 791, 901, 1056, 1233, 1333
Hin6I GCGC 2 cut(s) 110, 1199
HinP1I GCGC 2 cut(s) 110, 1199
HinfI GANTC 3 cut(s) 217, 343, 578
HpaII CCGG 5 cut(s) 83, 120, 156, 575, 817
HphI GGTGA 6 cut(s) 6, 88, 145, 208, 340, 868
Hpy166II GTNNAC 4 cut(s) 376, 556, 965, 1304
Hpy188I TCNGA 4 cut(s) 226, 646, 1093, 1192
Hpy188III TCNNGA 2 cut(s) 64, 413
Hpy8I GTNNAC 4 cut(s) 376, 556, 965, 1304
Hpy99I CGWCG 4 cut(s) 70, 98, 426, 436
HpyAV CCTTC 6 cut(s) 359, 410, 478, 699, 794, 1006
HpyCH4III ACNGT 2 cut(s) 535, 888
HpyCH4IV ACGT 3 cut(s) 68, 96, 434
HpyCH4V TGCA 9 cut(s) 55, 670, 746, 872, 965, 1046, 1116, 1139, 1323
HpyF3I CTNAG 4 cut(s) 26, 223, 283, 1092
HpySE526I ACGT 3 cut(s) 68, 96, 434
Hsp92I GRCGYC 1 cut(s) 1199
Hsp92II CATG 9 cut(s) 43, 76, 358, 562, 791, 901, 1056, 1233, 1333
HspAI GCGC 2 cut(s) 110, 1199
KasI GGCGCC 1 cut(s) 1198
Kzo9I GATC 3 cut(s) 45, 78, 835
LmnI GCTCC 4 cut(s) 610, 916, 1136, 1291
Lsp1109I GCAGC 7 cut(s) 381, 730, 1000, 1003, 1231, 1270, 1326
LweI GCATC 1 cut(s) 192
MaeI CTAG 3 cut(s) 309, 723, 1339
MaeII ACGT 3 cut(s) 68, 96, 434
MaeIII GTNAC 3 cut(s) 97, 903, 933
MalI GATC 3 cut(s) 47, 80, 837
MbiI CCGCTC 1 cut(s) 605
MboI GATC 3 cut(s) 45, 78, 835
MboII GAAGA 2 cut(s) 135, 310
MfeI CAATTG 2 cut(s) 747, 1318
MhlI GDGCHC 3 cut(s) 27, 137, 967
MlsI TGGCCA 1 cut(s) 338
MluCI AATT 9 cut(s) 313, 441, 640, 652, 665, 747, 1207, 1318, 1324
MluNI TGGCCA 1 cut(s) 338
Mly113I GGCGCC 1 cut(s) 1199
MlyI GAGTC 1 cut(s) 337
MmeI TCCRAC 1 cut(s) 1216
Mox20I TGGCCA 1 cut(s) 338
MroXI GAANNNNTTC 1 cut(s) 317
MscI TGGCCA 1 cut(s) 338
MseI TTAA 2 cut(s) 809, 1206
MslI CAYNNNNRTG 2 cut(s) 353, 1051
Msp20I TGGCCA 1 cut(s) 338
MspI CCGG 5 cut(s) 83, 120, 156, 575, 817
MspR9I CCNGG 6 cut(s) 18, 83, 120, 770, 817, 1215
MunI CAATTG 2 cut(s) 747, 1318
MvaI CCWGG 3 cut(s) 18, 770, 1215
MvnI CGCG 1 cut(s) 65
NarI GGCGCC 1 cut(s) 1199
NciI CCSGG 3 cut(s) 83, 120, 817
NcoI CCATGG 1 cut(s) 354
NdeI CATATG 2 cut(s) 969, 1127
NdeII GATC 3 cut(s) 45, 78, 835
NlaIII CATG 9 cut(s) 43, 76, 358, 562, 791, 901, 1056, 1233, 1333
NlaIV GGNNCC 5 cut(s) 481, 912, 1005, 1200, 1335
NruI TCGCGA 1 cut(s) 65
NspI RCATGY 1 cut(s) 1233
NspV TTCGAA 1 cut(s) 638
PdmI GAANNNNTTC 1 cut(s) 317
PfeI GAWTC 2 cut(s) 217, 578
PfoI TCCNGGA 1 cut(s) 118
PkrI GCNGC 7 cut(s) 371, 745, 1015, 1018, 1246, 1285, 1316
PleI GAGTC 1 cut(s) 337
PluTI GGCGCC 1 cut(s) 1202
PpsI GAGTC 1 cut(s) 337
Psp6I CCWGG 3 cut(s) 16, 768, 1213
PspFI CCCAGC 1 cut(s) 184
PspGI CCWGG 3 cut(s) 16, 768, 1213
PspN4I GGNNCC 5 cut(s) 481, 912, 1005, 1200, 1335
PspPI GGNCC 3 cut(s) 814, 993, 1085
PsrI GAACNNNNNNTAC 2 cut(s) 472, 504
RruI TCGCGA 1 cut(s) 65
RsaI GTAC 2 cut(s) 329, 557
RsaNI GTAC 2 cut(s) 328, 556
RseI CAYNNNNRTG 2 cut(s) 353, 1051
SaqAI TTAA 2 cut(s) 809, 1206
SatI GCNGC 7 cut(s) 370, 744, 1014, 1017, 1245, 1284, 1315
Sau3AI GATC 3 cut(s) 45, 78, 835
Sau96I GGNCC 3 cut(s) 814, 993, 1085
SchI GAGTC 1 cut(s) 337
ScrFI CCNGG 6 cut(s) 18, 83, 120, 770, 817, 1215
SduI GDGCHC 3 cut(s) 27, 137, 967
SfaNI GCATC 1 cut(s) 192
SfcI CTRYAG 2 cut(s) 298, 678
SfoI GGCGCC 1 cut(s) 1200
SfuI TTCGAA 1 cut(s) 638
SinI GGWCC 1 cut(s) 993
SmiMI CAYNNNNRTG 2 cut(s) 353, 1051
SmlI CTYRAG 1 cut(s) 1107
SmoI CTYRAG 1 cut(s) 1107
Sse9I AATT 9 cut(s) 313, 441, 640, 652, 665, 747, 1207, 1318, 1324
SsiI CCGC 7 cut(s) 170, 351, 401, 477, 539, 603, 662
SspDI GGCGCC 1 cut(s) 1198
SspI AATATT 1 cut(s) 291
SspMI CTAG 3 cut(s) 309, 723, 1339
StyD4I CCNGG 6 cut(s) 16, 81, 118, 768, 815, 1213
StyI CCWWGG 1 cut(s) 354
TaaI ACNGT 2 cut(s) 535, 888
TaiI ACGT 3 cut(s) 71, 99, 437
TaqI TCGA 4 cut(s) 431, 581, 638, 941
TasI AATT 9 cut(s) 313, 441, 640, 652, 665, 747, 1207, 1318, 1324
TatI WGTACW 1 cut(s) 555
TfiI GAWTC 2 cut(s) 217, 578
Tru1I TTAA 2 cut(s) 809, 1206
Tru9I TTAA 2 cut(s) 809, 1206
TscAI CASTG 2 cut(s) 198, 383
TseI GCWGC 7 cut(s) 369, 743, 1013, 1016, 1244, 1283, 1314
TspDTI ATGAA 5 cut(s) 61, 636, 663, 681, 776
TspGWI ACGGA 1 cut(s) 996
TspRI CASTG 2 cut(s) 198, 383
VneI GTGCAC 1 cut(s) 963
VpaK11BI GGWCC 1 cut(s) 993
XagI CCTNNNNNAGG 3 cut(s) 210, 301, 918
XapI RAATTY 4 cut(s) 313, 441, 640, 652
XceI RCATGY 1 cut(s) 1233
XmnI GAANNNNTTC 1 cut(s) 317
XspI CTAG 3 cut(s) 309, 723, 1339
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.