RLG00000031489

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr7
OG0019209
Physical Location & Seq
Reverse (-)
5581412 .. 5582923
1512 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000031489

Sequence Viewer

Length: 1512 bp
ATGTCAACCGATTTGTTTTTAAAGCCGTCGTGCCAAGTCCGCGGATGTGGATCAACTTCTGACTTGTACGGAAGCAACTGTAAGCATATGACTCGGTGCTTCTCATGTGGCAAGACCATGGCAGAGAACAAAGCCAAATGCATCCAATGCGACGCCATCGTCACTCGCTTAATTCGCGAGTACAATGTTAGGCGGGAAAGTACTGTCAACAACAAGAACTACTTCATTGGCAGATTCGGGACGGGTTTGCCAAACTTTTCGAGAACGAAGAATCCTTCTCAGAATAAATGGTCTCTTCGTAAGGATCTTCAAGACCCAAGAAAGAATAAGGAAGAGCAGAAAACTAAACCATGGGTCTTGGATGAACTAACGGGCCAGTCTCGGTATCAGGGTCATCAAGAAGGTGCACAGTCTGCAAGTTACTACCTACTAATGAAGCAAGAAAAGGAGTTTTCGGCTGTTCCGGCTGGTTCTTGGTTCAACTTCAACAAGGCTGCACAATATAAGCAACTTACTCTAGAGGAAGCGGAAGAGAAGATGAATAATAGGCAAAAGACTAATCGAGATGGATATAAAAGATGGATTATGAAATTTGGAAACGGACCTGAAAAAGTTACTGGTGATGATGGTGGTGGTGGTGAAGGAAACTTCTCTGACAATGAGGAAGAAGAAACAACCAGGAAAAGATATAGACTTGGATCACTCAACAAAATAGGCGGGGATGGTGATGATGATGAGGATAATCTTATAGGTGCAAACGATGATGGTGACTTAAATGATGATGGTAGTGACAAGGGTAGTGATTGGGAGCACGAAGAAATTTTCAGTGATGATGATGAAGCTGTAGGTAATCCGGATGAACGAGAAGATTTCGAACATGAGGCTCCAGCTCCACCAGAAACTAAGCAGGATGATGATGGTAATGAAGAGGAGGCCGGGCTGAGTGAATCAGGGAGAGAGTTGAAGAAGCTACTTGGGAGAAGTGGTGGCCTGAATGGTATTGATGAGGAAGAGGAAGATGAAGACGACGATGATGAGGATGATATGGATGAGGATATTGGCTTATTGCCTCCGGCACCAAAGCAGAAGGATGCACCCAAACAGCTGGAACCATTTGACAACAGTTCCACAAAACCAGTTACGAAGGGAAAGAGAAAACTAGATAGTGATCAGGCTAATAAGGCATCTAACACTGCACCTCCGAAGAAGATGAAGACTGAAAATGAACAAAAATCATCTGTCAGAGAGAAGCCAGCTGCTTCTGAATTTAGTGTGCACGCCAAAGTTACTCCATCCTTGAAAACTGGTTCTGCTAGTCCGGTATCTGAGGAAGAAATTAGGGATCTATTGATGCAAAAGGCACCAATCGCCCTACCTGATTTTGTTAATAACTTCCCGGAAAGAGGCAAATATTCCAAAGAGCAGAAGGATGCTTTTACAGCAACCGTTAAGAAAGTATCTGTGCTAGAGAAGAAGAACGGGATCAGCTATGTTGTATTGAGAAAGAAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0008022
KEGG Pathways
Metabolic & Signaling
ko03022 map03022
Pfam Domains
Protein Families
TFIIF_alpha

Protein Analysis

504

Amino Acids

56.34

Weight (kDa)

4.99

Isoelectric Point (pI)

48.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 114 - 209 1.9e-29 Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
TFIIF_alpha PF05793 213 - 501 1.2e-28 Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
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: OG0019209)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g04782
rosa_chinensis RchiOBHm_Chr5g0007791
rosa_laevigata RLG00000031489
rosa_multiflora Rmu_sc0005098.1_g000015
rosa_roxburghii Rroxscaffold_1G00068620
rosa_rugosa Rorug04G0430500
rosa_samantha Rh5CG065400
rosa_wichuraiana Rw5G006090

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 158
AccB1I GGYRCC 2 cut(s) 1075, 1360
AccII CGCG 2 cut(s) 42, 177
AccIII TCCGGA 1 cut(s) 853
AciI CCGC 5 cut(s) 40, 42, 193, 527, 717
AclWI GGATC 5 cut(s) 58, 312, 706, 1350, 1490
AcsI RAATTY 3 cut(s) 590, 819, 1265
AcyI GRCGYC 1 cut(s) 153
AfaI GTAC 3 cut(s) 68, 182, 202
AfiI CCNNNNNNNGG 1 cut(s) 1403
AgsI TTSAA 5 cut(s) 311, 481, 487, 964, 1300
AjnI CCWGG 1 cut(s) 677
AloI GAACNNNNNNTCC 2 cut(s) 256, 288
AluBI AGCT 6 cut(s) 842, 890, 970, 1105, 1256, 1488
AluI AGCT 6 cut(s) 842, 890, 970, 1105, 1256, 1488
Alw21I GWGCWC 3 cut(s) 409, 813, 1278
Alw26I GTCTC 2 cut(s) 297, 384
Alw44I GTGCAC 2 cut(s) 405, 1274
AlwI GGATC 5 cut(s) 58, 312, 706, 1350, 1490
Aor13HI TCCGGA 1 cut(s) 853
AoxI GGCC 3 cut(s) 373, 933, 988
ApaLI GTGCAC 2 cut(s) 405, 1274
ApeKI GCWGC 2 cut(s) 494, 1256
ApoI RAATTY 3 cut(s) 590, 819, 1265
Asp700I GAANNNNTTC 1 cut(s) 221
AspS9I GGNCC 2 cut(s) 373, 602
AsuC2I CCSGG 2 cut(s) 937, 1397
AsuHPI GGTGA 4 cut(s) 632, 650, 737, 779
AsuII TTCGAA 1 cut(s) 873
AvaII GGWCC 1 cut(s) 602
BaeGI GKGCMC 2 cut(s) 409, 1278
BanI GGYRCC 2 cut(s) 1075, 1360
BbsI GAAGAC 2 cut(s) 1029, 1220
Bbv12I GWGCWC 3 cut(s) 409, 813, 1278
BbvI GCAGC 2 cut(s) 481, 1243
BccI CCATC 9 cut(s) 164, 560, 573, 620, 716, 758, 776, 911, 1300
BceAI ACGGC 1 cut(s) 10
BcgI CGANNNNNNTGC 2 cut(s) 74, 108
BciT130I CCWGG 1 cut(s) 679
BclI TGATCA 1 cut(s) 1168
BcnI CCSGG 2 cut(s) 937, 1397
BcoDI GTCTC 2 cut(s) 297, 384
BfaI CTAG 4 cut(s) 518, 1160, 1314, 1466
BfmI CTRYAG 1 cut(s) 843
BisI GCNGC 2 cut(s) 495, 1257
BlsI GCNGC 2 cut(s) 496, 1258
BmcAI AGTACT 1 cut(s) 202
Bme1390I CCNGG 3 cut(s) 679, 937, 1397
Bme18I GGWCC 1 cut(s) 602
BmgT120I GGNCC 2 cut(s) 373, 602
BmiI GGNNCC 4 cut(s) 885, 1077, 1110, 1362
BmrFI CCNGG 3 cut(s) 679, 937, 1397
BmsI GCATC 5 cut(s) 150, 1081, 1193, 1341, 1420
BpiI GAAGAC 2 cut(s) 1029, 1220
BpmI CTGGAG 1 cut(s) 870
Bpu14I TTCGAA 1 cut(s) 873
BpuMI CCSGG 2 cut(s) 937, 1397
BsaBI GATNNNNATC 2 cut(s) 49, 1167
BsaHI GRCGYC 1 cut(s) 153
BsaI GGTCTC 1 cut(s) 297
BsaJI CCNNGG 3 cut(s) 40, 117, 350
BsaWI WCCGGW 2 cut(s) 853, 1318
BsaXI ACNNNNNCTCC 4 cut(s) 970, 1000, 1183, 1213
Bsc4I CCNNNNNNNGG 1 cut(s) 1403
Bse1I ACTGG 4 cut(s) 376, 622, 1136, 1309
Bse8I GATNNNNATC 2 cut(s) 49, 1167
BseAI TCCGGA 1 cut(s) 853
BseBI CCWGG 1 cut(s) 679
BseDI CCNNGG 3 cut(s) 40, 117, 350
BseJI GATNNNNATC 2 cut(s) 49, 1167
BseLI CCNNNNNNNGG 1 cut(s) 1403
BseMII CTCAG 3 cut(s) 293, 932, 1317
BseNI ACTGG 4 cut(s) 376, 622, 1136, 1309
BseRI GAGGAG 1 cut(s) 944
BseSI GKGCMC 2 cut(s) 409, 1278
BseXI GCAGC 2 cut(s) 481, 1243
BsgI GTGCAG 2 cut(s) 480, 1179
Bsh1236I CGCG 2 cut(s) 42, 177
BshFI GGCC 3 cut(s) 375, 935, 990
BshNI GGYRCC 2 cut(s) 1075, 1360
BsiHKAI GWGCWC 3 cut(s) 409, 813, 1278
BsiSI CCGG 6 cut(s) 464, 854, 936, 1073, 1319, 1397
BslFI GGGAC 1 cut(s) 253
BslI CCNNNNNNNGG 1 cut(s) 1403
BsmAI GTCTC 2 cut(s) 297, 384
BsmFI GGGAC 1 cut(s) 253
BsnI GGCC 3 cut(s) 375, 935, 990
Bso31I GGTCTC 1 cut(s) 297
Bsp119I TTCGAA 1 cut(s) 873
Bsp1286I GDGCHC 3 cut(s) 409, 813, 1278
Bsp13I TCCGGA 1 cut(s) 853
Bsp143I GATC 6 cut(s) 50, 304, 698, 1168, 1342, 1482
Bsp19I CCATGG 2 cut(s) 117, 350
Bsp68I TCGCGA 1 cut(s) 177
BspACI CCGC 5 cut(s) 40, 42, 193, 527, 717
BspANI GGCC 3 cut(s) 375, 935, 990
BspCNI CTCAG 3 cut(s) 292, 933, 1318
BspEI TCCGGA 1 cut(s) 853
BspFNI CGCG 2 cut(s) 42, 177
BspLI GGNNCC 4 cut(s) 885, 1077, 1110, 1362
BspPI GGATC 5 cut(s) 58, 312, 706, 1350, 1490
BspQI GCTCTTC 1 cut(s) 327
BspT104I TTCGAA 1 cut(s) 873
BspT107I GGYRCC 2 cut(s) 1075, 1360
BspTNI GGTCTC 1 cut(s) 297
BsrI ACTGG 4 cut(s) 376, 622, 1136, 1309
BssECI CCNNGG 3 cut(s) 40, 117, 350
BssMI GATC 6 cut(s) 50, 304, 698, 1168, 1342, 1482
BssNI GRCGYC 1 cut(s) 153
BssT1I CCWWGG 2 cut(s) 117, 350
Bst2UI CCWGG 1 cut(s) 679
Bst4CI ACNGT 5 cut(s) 80, 205, 411, 1124, 1447
Bst6I CTCTTC 5 cut(s) 300, 327, 525, 921, 1005
BstACI GRCGYC 1 cut(s) 153
BstAPI GCANNNNNTGC 2 cut(s) 147, 413
BstBI TTCGAA 1 cut(s) 873
BstC8I GCNNGC 2 cut(s) 1254, 1278
BstDEI CTNAG 4 cut(s) 279, 903, 941, 1326
BstDSI CCRYGG 3 cut(s) 40, 117, 350
BstFNI CGCG 2 cut(s) 42, 177
BstKTI GATC 6 cut(s) 53, 307, 701, 1171, 1345, 1485
BstMAI GTCTC 2 cut(s) 297, 384
BstMBI GATC 6 cut(s) 50, 304, 698, 1168, 1342, 1482
BstMWI GCNNNNNNNGC 8 cut(s) 39, 147, 174, 413, 464, 1181, 1367, 1439
BstNI CCWGG 1 cut(s) 679
BstSCI CCNGG 3 cut(s) 677, 935, 1395
BstSFI CTRYAG 1 cut(s) 843
BstSLI GKGCMC 2 cut(s) 409, 1278
BstUI CGCG 2 cut(s) 42, 177
BstV1I GCAGC 2 cut(s) 481, 1243
BstV2I GAAGAC 2 cut(s) 1029, 1220
BstX2I RGATCY 2 cut(s) 304, 1342
BstXI CCANNNNNNTGG 1 cut(s) 1105
BstYI RGATCY 2 cut(s) 304, 1342
BsuRI GGCC 3 cut(s) 375, 935, 990
BtgI CCRYGG 3 cut(s) 40, 117, 350
BtsI GCAGTG 1 cut(s) 1191
BtsIMutI CAGTG 2 cut(s) 832, 1191
BtuMI TCGCGA 1 cut(s) 177
Cac8I GCNNGC 2 cut(s) 1254, 1278
Cfr13I GGNCC 2 cut(s) 373, 602
Cfr42I CCGCGG 1 cut(s) 43
CseI GACGC 1 cut(s) 161
Csp6I GTAC 3 cut(s) 67, 181, 201
CviAII CATG 4 cut(s) 105, 118, 351, 878
CviQI GTAC 3 cut(s) 67, 181, 201
DdeI CTNAG 4 cut(s) 279, 903, 941, 1326
DpnI GATC 6 cut(s) 52, 306, 700, 1170, 1344, 1484
DpnII GATC 6 cut(s) 50, 304, 698, 1168, 1342, 1482
DraI TTTAAA 1 cut(s) 21
DrdI GACNNNNNNGTC 1 cut(s) 158
DseDI GACNNNNNNGTC 1 cut(s) 158
Eam1104I CTCTTC 5 cut(s) 300, 327, 525, 921, 1005
EarI CTCTTC 5 cut(s) 300, 327, 525, 921, 1005
Eco130I CCWWGG 2 cut(s) 117, 350
Eco31I GGTCTC 1 cut(s) 297
Eco47I GGWCC 1 cut(s) 602
EcoRII CCWGG 1 cut(s) 677
EcoT14I CCWWGG 2 cut(s) 117, 350
EcoT22I ATGCAT 1 cut(s) 143
ErhI CCWWGG 2 cut(s) 117, 350
FaeI CATG 4 cut(s) 108, 121, 354, 881
FalI AAGNNNNNCTT 2 cut(s) 206, 238
FaqI GGGAC 1 cut(s) 253
FatI CATG 4 cut(s) 104, 117, 350, 877
FauI CCCGC 2 cut(s) 186, 710
FauNDI CATATG 1 cut(s) 87
FbaI TGATCA 1 cut(s) 1168
Fnu4HI GCNGC 2 cut(s) 495, 1257
Fsp4HI GCNGC 2 cut(s) 495, 1257
FspBI CTAG 4 cut(s) 518, 1160, 1314, 1466
GluI GCNGC 2 cut(s) 495, 1257
GsuI CTGGAG 1 cut(s) 870
HaeIII GGCC 3 cut(s) 375, 935, 990
HapII CCGG 6 cut(s) 464, 854, 936, 1073, 1319, 1397
HgaI GACGC 1 cut(s) 161
Hin1I GRCGYC 1 cut(s) 153
Hin1II CATG 4 cut(s) 108, 121, 354, 881
HincII GTYRAC 2 cut(s) 6, 208
HindII GTYRAC 2 cut(s) 6, 208
HinfI GANTC 4 cut(s) 91, 234, 271, 947
HpaII CCGG 6 cut(s) 464, 854, 936, 1073, 1319, 1397
HphI GGTGA 4 cut(s) 632, 650, 737, 779
Hpy166II GTNNAC 4 cut(s) 6, 208, 407, 1276
Hpy188I TCNGA 7 cut(s) 61, 282, 655, 1203, 1244, 1264, 1327
Hpy188III TCNNGA 8 cut(s) 176, 238, 261, 311, 398, 518, 563, 854
Hpy8I GTNNAC 4 cut(s) 6, 208, 407, 1276
Hpy99I CGWCG 3 cut(s) 31, 155, 1031
HpyAV CCTTC 6 cut(s) 285, 395, 635, 1081, 1138, 1420
HpyCH4III ACNGT 5 cut(s) 80, 205, 411, 1124, 1447
HpyCH4V TGCA 9 cut(s) 141, 407, 416, 497, 755, 1094, 1196, 1276, 1354
HpyF10VI GCNNNNNNNGC 8 cut(s) 39, 147, 174, 413, 464, 1181, 1367, 1439
HpyF3I CTNAG 4 cut(s) 279, 903, 941, 1326
Hsp92I GRCGYC 1 cut(s) 153
Hsp92II CATG 4 cut(s) 108, 121, 354, 881
Kpn2I TCCGGA 1 cut(s) 853
Ksp22I TGATCA 1 cut(s) 1168
KspI CCGCGG 1 cut(s) 43
Kzo9I GATC 6 cut(s) 50, 304, 698, 1168, 1342, 1482
LguI GCTCTTC 1 cut(s) 327
LmnI GCTCC 3 cut(s) 808, 889, 895
Lsp1109I GCAGC 2 cut(s) 481, 1243
LweI GCATC 5 cut(s) 150, 1081, 1193, 1341, 1420
MaeI CTAG 4 cut(s) 518, 1160, 1314, 1466
MaeIII GTNAC 7 cut(s) 160, 419, 613, 767, 788, 1138, 1285
MalI GATC 6 cut(s) 52, 306, 700, 1170, 1344, 1484
MboI GATC 6 cut(s) 50, 304, 698, 1168, 1342, 1482
MflI RGATCY 2 cut(s) 304, 1342
MhlI GDGCHC 3 cut(s) 409, 813, 1278
MluCI AATT 5 cut(s) 171, 590, 819, 1265, 1335
MlyI GAGTC 1 cut(s) 85
Mph1103I ATGCAT 1 cut(s) 143
MroI TCCGGA 1 cut(s) 853
MroXI GAANNNNTTC 1 cut(s) 221
MseI TTAA 5 cut(s) 20, 170, 773, 1386, 1449
MspA1I CMGCKG 3 cut(s) 42, 1105, 1256
MspI CCGG 6 cut(s) 464, 854, 936, 1073, 1319, 1397
MspR9I CCNGG 3 cut(s) 679, 937, 1397
MvaI CCWGG 1 cut(s) 679
MvnI CGCG 2 cut(s) 42, 177
MwoI GCNNNNNNNGC 8 cut(s) 39, 147, 174, 413, 464, 1181, 1367, 1439
NciI CCSGG 2 cut(s) 937, 1397
NcoI CCATGG 2 cut(s) 117, 350
NdeI CATATG 1 cut(s) 87
NdeII GATC 6 cut(s) 50, 304, 698, 1168, 1342, 1482
NlaIII CATG 4 cut(s) 108, 121, 354, 881
NlaIV GGNNCC 4 cut(s) 885, 1077, 1110, 1362
NmuCI GTSAC 3 cut(s) 160, 767, 788
NruI TCGCGA 1 cut(s) 177
NsiI ATGCAT 1 cut(s) 143
NspV TTCGAA 1 cut(s) 873
PciSI GCTCTTC 1 cut(s) 327
PdmI GAANNNNTTC 1 cut(s) 221
PfeI GAWTC 3 cut(s) 234, 271, 947
PfoI TCCNGGA 1 cut(s) 1395
PkrI GCNGC 2 cut(s) 496, 1258
PleI GAGTC 1 cut(s) 85
PpsI GAGTC 1 cut(s) 85
Psp6I CCWGG 1 cut(s) 677
PspGI CCWGG 1 cut(s) 677
PspN4I GGNNCC 4 cut(s) 885, 1077, 1110, 1362
PspPI GGNCC 2 cut(s) 373, 602
PsuI RGATCY 2 cut(s) 304, 1342
PvuII CAGCTG 2 cut(s) 1105, 1256
RruI TCGCGA 1 cut(s) 177
RsaI GTAC 3 cut(s) 68, 182, 202
RsaNI GTAC 3 cut(s) 67, 181, 201
SacII CCGCGG 1 cut(s) 43
SapI GCTCTTC 1 cut(s) 327
SaqAI TTAA 5 cut(s) 20, 170, 773, 1386, 1449
SatI GCNGC 2 cut(s) 495, 1257
Sau3AI GATC 6 cut(s) 50, 304, 698, 1168, 1342, 1482
Sau96I GGNCC 2 cut(s) 373, 602
ScaI AGTACT 1 cut(s) 202
SchI GAGTC 1 cut(s) 85
ScrFI CCNGG 3 cut(s) 679, 937, 1397
SduI GDGCHC 3 cut(s) 409, 813, 1278
SfaNI GCATC 5 cut(s) 150, 1081, 1193, 1341, 1420
SfcI CTRYAG 1 cut(s) 843
Sfr303I CCGCGG 1 cut(s) 43
SfuI TTCGAA 1 cut(s) 873
SgrBI CCGCGG 1 cut(s) 43
SinI GGWCC 1 cut(s) 602
Sse9I AATT 5 cut(s) 171, 590, 819, 1265, 1335
SsiI CCGC 5 cut(s) 40, 42, 193, 527, 717
SspI AATATT 1 cut(s) 1412
SspMI CTAG 4 cut(s) 518, 1160, 1314, 1466
StyD4I CCNGG 3 cut(s) 677, 935, 1395
StyI CCWWGG 2 cut(s) 117, 350
TaaI ACNGT 5 cut(s) 80, 205, 411, 1124, 1447
TaqI TCGA 3 cut(s) 260, 562, 873
TasI AATT 5 cut(s) 171, 590, 819, 1265, 1335
TatI WGTACW 2 cut(s) 180, 200
TfiI GAWTC 3 cut(s) 234, 271, 947
Tru1I TTAA 5 cut(s) 20, 170, 773, 1386, 1449
Tru9I TTAA 5 cut(s) 20, 170, 773, 1386, 1449
TscAI CASTG 2 cut(s) 832, 1198
TseFI GTSAC 3 cut(s) 160, 767, 788
TseI GCWGC 2 cut(s) 494, 1256
Tsp45I GTSAC 3 cut(s) 160, 767, 788
TspGWI ACGGA 2 cut(s) 84, 615
TspRI CASTG 2 cut(s) 832, 1198
VneI GTGCAC 2 cut(s) 405, 1274
VpaK11BI GGWCC 1 cut(s) 602
XapI RAATTY 3 cut(s) 590, 819, 1265
XbaI TCTAGA 1 cut(s) 517
XmnI GAANNNNTTC 1 cut(s) 221
XspI CTAG 4 cut(s) 518, 1160, 1314, 1466
ZrmI AGTACT 1 cut(s) 202
Zsp2I ATGCAT 1 cut(s) 143
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.