Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0011422

Physical Location & Seq

Genomic Coordinates Forward (+)

63174417 .. 63177195

Gene Structure 2779 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG357700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1137 bp

ATGGAGAAGGAGCTGTTGGAGGTGTTTGACGACGTGACGAAGGCGGCCGACGCCGCGAAATCGTGCGACGGTGGCGCCGAGGAAAGTCTCTGTCTTGAGGCCTTGGACCGCCTTAACAATTTTCCCGTCTCTTATCAGCTTCTCGTCTCAACCCAAGTTGGGAAGCGTCTTAAGAATCTCACAAAACATCCTAGAAAGAAAATCCAGACTTTTGCGCTTAGCCTGATGGAATCATGGAAGCAAATTGTCATTGAGGAAACATCAAAAAACGATGTGAAGAATGGCAGGTATGAAAGAAAAGATTCGCTAAAGCGTGAGTCAAATCCCAATAGTCCCAGGCCTGTGAAGATTCAGAAAACTGCTGCTGACAAGGTTGAGAAGGTCCCCAAGGCTGAACAGGGTGACATTAAGAAGGTTGATCGTGATGTTAAACCAAGCTCAGAGAAAGCATATAGTTCTGAAAGTGGGACAACGGATAGTAAGGTTGAAAATCATAATGTTGTCAAGACTGAGAAAGCTCCCTCGGCGGATAATGTCAAGGTTGAAAAAGTAGCCAGAGAAGTGAAGAAACCTGTGTCTGGTCCCCCAAAGTTGACATCTATACCAAAGTCTAATGATCAGGCAAGGGACAGAGTAAGGGGAATGCTGCATGAGGCTTTGTCCAAGGTTTCCCAGGAGTCTGAGGCTAATGAAAGATTTGTGGATTCAGTGAATGCATGCGACCCTATTAGAGTTGCTGTTACAGTGGAGTCTGTGCTATTTGAGAACTGGGGTGGTTCCAATGGGTCCCAGAAGGCTAAGTACCGATCACTAATTTTTAACCTGAAGGACCAAAAGAACCCAGATTTTCGCAGAAAAGTTCTTCTTGGAGATGTCAAGGCAGAGAGGCTTGTAGACATGTCCACAGCTGAAATGGCAAGTGATGAGAGGCAATCAGAGAATAAAAAGCTCGAAGAAAAGGCATTGTTTGAGTGTGAGCGTGGACATGCACCAATGGCTTCAACTGATCAATTCAAATGTGGTCGATGTGGGAAACGCAAGACCACCTACTACCAGATGCAGACGCGGAGTGCCGATGAACCTATGACAACATATGTAACATGTGTAAACTGCAATAACCGCTGGAAGTTCTGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006351 GO:0006354 GO:0006355 GO:0006725 GO:0006807 GO:0008023 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032774 GO:0032784 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Med26 TFIIS_C TFIIS_M

Protein Analysis

378

Amino Acids

42.59

Weight (kDa)

9.05

Isoelectric Point (pI)

35.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med26	PF08711	33 - 83	4.6e-11	TFIIS helical bundle-like domain
TFIIS_M	PF07500	205 - 325	1.4e-34	Transcription factor S-II (TFIIS), central domain
Zn_ribbon_TFIIS	PF01096	338 - 376	7.6e-19	Transcription factor S-II (TFIIS)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0011422)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G38560
fragaria_vesca	FvH4_7g26060 FvH4_7g26060 FvH4_7g26060
malus_domestica	MD01G1169100.v1.1 MD07G1235000.v1.1
prunus_persica	Prupe.2G265300_v2.0.a1
pyrus_communis	pycom01g18180 pycom07g21250
rosa_chinensis	RchiOBHm_Chr1g0372471
rosa_laevigata	RLG00000026896
rosa_multiflora	Rmu_sc0005410.1_g000001 Rmu_sc0011709.1_g000008
rosa_roxburghii	Rroxscaffold_4G00284880
rosa_rugosa	Rorug01G0372200
rosa_samantha	Rh1AG380700 Rh1BG344300 Rh1CG357700 Rh1DG375500
rosa_wichuraiana	Rw1G033490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	276
AccB1I	GGYRCC	1 cut(s)	74
AccI	GTMKAC	1 cut(s)	894
AccII	CGCG	2 cut(s)	56, 1066
AciI	CCGC	6 cut(s)	44, 54, 109, 527, 1066, 1120
AcoI	YGGCCR	1 cut(s)	45
AcuI	CTGAAG	1 cut(s)	845
AcyI	GRCGYC	2 cut(s)	51, 75
AfaI	GTAC	1 cut(s)	803
AfiI	CCNNNNNNNGG	2 cut(s)	159, 578
AflII	CTTAAG	1 cut(s)	170
AflIII	ACRYGT	2 cut(s)	897, 1100
AgsI	TTSAA	4 cut(s)	488, 545, 1002, 1015
AjiI	CACGTC	1 cut(s)	34
AjnI	CCWGG	2 cut(s)	335, 672
AjuI	GAANNNNNNNTTGG	1 cut(s)	31
AluBI	AGCT	6 cut(s)	13, 139, 438, 518, 908, 949
AluI	AGCT	6 cut(s)	13, 139, 438, 518, 908, 949
Alw26I	GTCTC	3 cut(s)	92, 133, 151
AoxI	GGCC	3 cut(s)	45, 99, 338
ApeKI	GCWGC	2 cut(s)	362, 646
Asp700I	GAANNNNTTC	1 cut(s)	301
AspLEI	GCGC	2 cut(s)	77, 217
AspS9I	GGNCC	5 cut(s)	106, 382, 581, 786, 829
AsuHPI	GGTGA	1 cut(s)	413
AvaII	GGWCC	5 cut(s)	106, 382, 581, 786, 829
BanI	GGYRCC	1 cut(s)	74
BarI	GAAGNNNNNNTAC	2 cut(s)	785, 817
BbvI	GCAGC	2 cut(s)	349, 633
BccI	CCATC	1 cut(s)	220
BciT130I	CCWGG	2 cut(s)	337, 674
BclI	TGATCA	2 cut(s)	616, 1006
BcoDI	GTCTC	3 cut(s)	92, 133, 151
BfaI	CTAG	1 cut(s)	192
BfoI	RGCGCY	1 cut(s)	78
BfrI	CTTAAG	1 cut(s)	170
BfuAI	ACCTGC	1 cut(s)	276
BisI	GCNGC	4 cut(s)	45, 54, 363, 647
BlpI	GCTNAGC	1 cut(s)	218
BlsI	GCNGC	4 cut(s)	46, 55, 364, 648
Bme1390I	CCNGG	2 cut(s)	337, 674
Bme18I	GGWCC	5 cut(s)	106, 382, 581, 786, 829
BmgBI	CACGTC	1 cut(s)	34
BmgT120I	GGNCC	5 cut(s)	106, 382, 581, 786, 829
BmiI	GGNNCC	6 cut(s)	76, 384, 583, 778, 787, 788
BmrFI	CCNGG	2 cut(s)	337, 674
BmrI	ACTGGG	1 cut(s)	778
BmsI	GCATC	1 cut(s)	1047
BmuI	ACTGGG	1 cut(s)	778
Bpu1102I	GCTNAGC	1 cut(s)	218
BpuEI	CTTGAG	1 cut(s)	116
BsaHI	GRCGYC	2 cut(s)	51, 75
BsaJI	CCNNGG	7 cut(s)	78, 102, 335, 387, 522, 663, 672
Bsc4I	CCNNNNNNNGG	2 cut(s)	159, 578
Bse1I	ACTGG	1 cut(s)	773
BseBI	CCWGG	2 cut(s)	337, 674
BseDI	CCNNGG	7 cut(s)	78, 102, 335, 387, 522, 663, 672
BseGI	GGATG	1 cut(s)	187
BseLI	CCNNNNNNNGG	2 cut(s)	159, 578
BseMII	CTCAG	3 cut(s)	453, 501, 672
BseNI	ACTGG	1 cut(s)	773
BseX3I	CGGCCG	1 cut(s)	45
BseXI	GCAGC	2 cut(s)	349, 633
Bsh1236I	CGCG	2 cut(s)	56, 1066
Bsh1285I	CGRYCG	1 cut(s)	48
BshFI	GGCC	3 cut(s)	47, 101, 340
BshNI	GGYRCC	1 cut(s)	74
BsiEI	CGRYCG	1 cut(s)	48
BslFI	GGGAC	6 cut(s)	318, 368, 481, 567, 641, 772
BslI	CCNNNNNNNGG	2 cut(s)	159, 578
BsmAI	GTCTC	3 cut(s)	92, 133, 151
BsmBI	CGTCTC	2 cut(s)	133, 151
BsmFI	GGGAC	6 cut(s)	318, 368, 481, 567, 641, 772
BsmI	GAATGC	2 cut(s)	648, 718
BsnI	GGCC	3 cut(s)	47, 101, 340
Bsp143I	GATC	4 cut(s)	418, 616, 806, 1006
Bsp1720I	GCTNAGC	1 cut(s)	218
BspACI	CCGC	6 cut(s)	44, 54, 109, 527, 1066, 1120
BspANI	GGCC	3 cut(s)	47, 101, 340
BspCNI	CTCAG	3 cut(s)	452, 502, 673
BspFNI	CGCG	2 cut(s)	56, 1066
BspLI	GGNNCC	6 cut(s)	76, 384, 583, 778, 787, 788
BspMI	ACCTGC	1 cut(s)	276
BspT107I	GGYRCC	1 cut(s)	74
BspTI	CTTAAG	1 cut(s)	170
BsrI	ACTGG	1 cut(s)	773
BssECI	CCNNGG	7 cut(s)	78, 102, 335, 387, 522, 663, 672
BssMI	GATC	4 cut(s)	418, 616, 806, 1006
BssNI	GRCGYC	2 cut(s)	51, 75
BssT1I	CCWWGG	3 cut(s)	102, 387, 663
Bst2UI	CCWGG	2 cut(s)	337, 674
Bst4CI	ACNGT	2 cut(s)	71, 745
BstACI	GRCGYC	2 cut(s)	51, 75
BstAFI	CTTAAG	1 cut(s)	170
BstC8I	GCNNGC	1 cut(s)	718
BstDEI	CTNAG	5 cut(s)	218, 439, 510, 681, 798
BstF5I	GGATG	1 cut(s)	187
BstFNI	CGCG	2 cut(s)	56, 1066
BstH2I	RGCGCY	1 cut(s)	78
BstHHI	GCGC	2 cut(s)	77, 217
BstKTI	GATC	4 cut(s)	421, 619, 809, 1009
BstMAI	GTCTC	3 cut(s)	92, 133, 151
BstMBI	GATC	4 cut(s)	418, 616, 806, 1006
BstMCI	CGRYCG	1 cut(s)	48
BstMWI	GCNNNNNNNGC	7 cut(s)	50, 53, 72, 524, 914, 995, 1119
BstNI	CCWGG	2 cut(s)	337, 674
BstNSI	RCATGY	4 cut(s)	720, 901, 989, 1104
BstSCI	CCNGG	2 cut(s)	335, 672
BstUI	CGCG	2 cut(s)	56, 1066
BstV1I	GCAGC	2 cut(s)	349, 633
BstZI	CGGCCG	1 cut(s)	45
BsuRI	GGCC	3 cut(s)	47, 101, 340
BtrI	CACGTC	1 cut(s)	34
BtsCI	GGATG	1 cut(s)	187
BtsIMutI	CAGTG	2 cut(s)	714, 750
BveI	ACCTGC	1 cut(s)	276
Cac8I	GCNNGC	1 cut(s)	718
CfoI	GCGC	2 cut(s)	77, 217
Cfr13I	GGNCC	5 cut(s)	106, 382, 581, 786, 829
CseI	GACGC	3 cut(s)	59, 155, 1072
Csp6I	GTAC	1 cut(s)	802
CviAII	CATG	6 cut(s)	234, 650, 717, 898, 986, 1101
CviQI	GTAC	1 cut(s)	802
DdeI	CTNAG	5 cut(s)	218, 439, 510, 681, 798
DinI	GGCGCC	1 cut(s)	76
DpnI	GATC	4 cut(s)	420, 618, 808, 1008
DpnII	GATC	4 cut(s)	418, 616, 806, 1006
EaeI	YGGCCR	1 cut(s)	45
EagI	CGGCCG	1 cut(s)	45
EciI	GGCGGA	1 cut(s)	542
EclXI	CGGCCG	1 cut(s)	45
Eco130I	CCWWGG	3 cut(s)	102, 387, 663
Eco147I	AGGCCT	2 cut(s)	101, 340
Eco47I	GGWCC	5 cut(s)	106, 382, 581, 786, 829
Eco52I	CGGCCG	1 cut(s)	45
Eco57I	CTGAAG	1 cut(s)	845
EcoO109I	RGGNCCY	2 cut(s)	382, 786
EcoRII	CCWGG	2 cut(s)	335, 672
EcoT14I	CCWWGG	3 cut(s)	102, 387, 663
EcoT22I	ATGCAT	1 cut(s)	718
EgeI	GGCGCC	1 cut(s)	76
EheI	GGCGCC	1 cut(s)	76
ErhI	CCWWGG	3 cut(s)	102, 387, 663
Esp3I	CGTCTC	2 cut(s)	133, 151
FaeI	CATG	6 cut(s)	237, 653, 720, 901, 989, 1104
FalI	AAGNNNNNCTT	2 cut(s)	849, 881
FaqI	GGGAC	6 cut(s)	318, 368, 481, 567, 641, 772
FatI	CATG	6 cut(s)	233, 649, 716, 897, 985, 1100
FauNDI	CATATG	1 cut(s)	1093
FbaI	TGATCA	2 cut(s)	616, 1006
FblI	GTMKAC	1 cut(s)	894
Fnu4HI	GCNGC	4 cut(s)	45, 54, 363, 647
FokI	GGATG	1 cut(s)	174
Fsp4HI	GCNGC	4 cut(s)	45, 54, 363, 647
FspBI	CTAG	1 cut(s)	192
GlaI	GCGC	2 cut(s)	76, 216
GluI	GCNGC	4 cut(s)	45, 54, 363, 647
HaeII	RGCGCY	1 cut(s)	78
HaeIII	GGCC	3 cut(s)	47, 101, 340
HgaI	GACGC	3 cut(s)	59, 155, 1072
HhaI	GCGC	2 cut(s)	77, 217
Hin1I	GRCGYC	2 cut(s)	51, 75
Hin1II	CATG	6 cut(s)	237, 653, 720, 901, 989, 1104
Hin6I	GCGC	2 cut(s)	75, 215
HinP1I	GCGC	2 cut(s)	75, 215
HincII	GTYRAC	1 cut(s)	594
HindII	GTYRAC	1 cut(s)	594
HinfI	GANTC	8 cut(s)	175, 230, 302, 317, 349, 677, 704, 749
HphI	GGTGA	1 cut(s)	413
Hpy166II	GTNNAC	5 cut(s)	594, 895, 903, 983, 1108
Hpy188I	TCNGA	5 cut(s)	354, 442, 460, 682, 937
Hpy188III	TCNNGA	4 cut(s)	95, 205, 422, 505
Hpy8I	GTNNAC	5 cut(s)	594, 895, 903, 983, 1108
Hpy99I	CGWCG	3 cut(s)	35, 53, 71
HpyAV	CCTTC	5 cut(s)	34, 373, 406, 787, 820
HpyCH4III	ACNGT	2 cut(s)	71, 745
HpyCH4IV	ACGT	1 cut(s)	33
HpyCH4V	TGCA	5 cut(s)	649, 716, 989, 1060, 1113
HpyF10VI	GCNNNNNNNGC	7 cut(s)	50, 53, 72, 524, 914, 995, 1119
HpyF3I	CTNAG	5 cut(s)	218, 439, 510, 681, 798
HpySE526I	ACGT	1 cut(s)	33
Hsp92I	GRCGYC	2 cut(s)	51, 75
Hsp92II	CATG	6 cut(s)	237, 653, 720, 901, 989, 1104
HspAI	GCGC	2 cut(s)	75, 215
KasI	GGCGCC	1 cut(s)	74
KflI	GGGWCCC	1 cut(s)	786
Ksp22I	TGATCA	2 cut(s)	616, 1006
Kzo9I	GATC	4 cut(s)	418, 616, 806, 1006
LmnI	GCTCC	2 cut(s)	10, 523
Lsp1109I	GCAGC	2 cut(s)	349, 633
LweI	GCATC	1 cut(s)	1047
MaeI	CTAG	1 cut(s)	192
MaeII	ACGT	1 cut(s)	33
MaeIII	GTNAC	4 cut(s)	34, 401, 739, 1096
MalI	GATC	4 cut(s)	420, 618, 808, 1008
MboI	GATC	4 cut(s)	418, 616, 806, 1006
MboII	GAAGA	5 cut(s)	289, 358, 577, 854, 965
MluCI	AATT	4 cut(s)	118, 243, 813, 1010
Mly113I	GGCGCC	1 cut(s)	75
MlyI	GAGTC	3 cut(s)	326, 686, 758
MnlI	CCTC	9 cut(s)	13, 73, 91, 247, 532, 646, 676, 879, 921
Mph1103I	ATGCAT	1 cut(s)	718
MroXI	GAANNNNTTC	1 cut(s)	301
MseI	TTAA	5 cut(s)	114, 171, 408, 429, 819
MspA1I	CMGCKG	2 cut(s)	908, 1122
MspCI	CTTAAG	1 cut(s)	170
MspR9I	CCNGG	2 cut(s)	337, 674
Mva1269I	GAATGC	2 cut(s)	648, 718
MvaI	CCWGG	2 cut(s)	337, 674
MvnI	CGCG	2 cut(s)	56, 1066
MwoI	GCNNNNNNNGC	7 cut(s)	50, 53, 72, 524, 914, 995, 1119
NarI	GGCGCC	1 cut(s)	75
NdeI	CATATG	1 cut(s)	1093
NdeII	GATC	4 cut(s)	418, 616, 806, 1006
NlaIII	CATG	6 cut(s)	237, 653, 720, 901, 989, 1104
NlaIV	GGNNCC	6 cut(s)	76, 384, 583, 778, 787, 788
NmeAIII	GCCGAG	2 cut(s)	103, 503
NmuCI	GTSAC	2 cut(s)	34, 401
NsiI	ATGCAT	1 cut(s)	718
NspI	RCATGY	4 cut(s)	720, 901, 989, 1104
PaeI	GCATGC	1 cut(s)	720
PceI	AGGCCT	2 cut(s)	101, 340
PciI	ACATGT	2 cut(s)	897, 1100
PcsI	WCGNNNNNNNCGW	1 cut(s)	75
PctI	GAATGC	2 cut(s)	648, 718
PdmI	GAANNNNTTC	1 cut(s)	301
PfeI	GAWTC	5 cut(s)	175, 230, 302, 349, 704
PkrI	GCNGC	4 cut(s)	46, 55, 364, 648
PleI	GAGTC	3 cut(s)	325, 685, 757
PluTI	GGCGCC	1 cut(s)	78
PpsI	GAGTC	3 cut(s)	325, 685, 757
PpuMI	RGGWCCY	2 cut(s)	382, 786
PscI	ACATGT	2 cut(s)	897, 1100
Psp5II	RGGWCCY	2 cut(s)	382, 786
Psp6I	CCWGG	2 cut(s)	335, 672
PspGI	CCWGG	2 cut(s)	335, 672
PspN4I	GGNNCC	6 cut(s)	76, 384, 583, 778, 787, 788
PspPI	GGNCC	5 cut(s)	106, 382, 581, 786, 829
PspPPI	RGGWCCY	2 cut(s)	382, 786
PvuII	CAGCTG	1 cut(s)	908
RsaI	GTAC	1 cut(s)	803
RsaNI	GTAC	1 cut(s)	802
SaqAI	TTAA	5 cut(s)	114, 171, 408, 429, 819
SatI	GCNGC	4 cut(s)	45, 54, 363, 647
Sau3AI	GATC	4 cut(s)	418, 616, 806, 1006
Sau96I	GGNCC	5 cut(s)	106, 382, 581, 786, 829
SchI	GAGTC	3 cut(s)	326, 686, 758
ScrFI	CCNGG	2 cut(s)	337, 674
SfaNI	GCATC	1 cut(s)	1047
SfoI	GGCGCC	1 cut(s)	76
SinI	GGWCC	5 cut(s)	106, 382, 581, 786, 829
SmlI	CTYRAG	2 cut(s)	95, 170
SmoI	CTYRAG	2 cut(s)	95, 170
SphI	GCATGC	1 cut(s)	720
Sse9I	AATT	4 cut(s)	118, 243, 813, 1010
SseBI	AGGCCT	2 cut(s)	101, 340
SsiI	CCGC	6 cut(s)	44, 54, 109, 527, 1066, 1120
SspDI	GGCGCC	1 cut(s)	74
SspMI	CTAG	1 cut(s)	192
StuI	AGGCCT	2 cut(s)	101, 340
StyD4I	CCNGG	2 cut(s)	335, 672
StyI	CCWWGG	3 cut(s)	102, 387, 663
TaaI	ACNGT	2 cut(s)	71, 745
TaiI	ACGT	1 cut(s)	36
TaqI	TCGA	2 cut(s)	951, 1024
TasI	AATT	4 cut(s)	118, 243, 813, 1010
TauI	GCSGC	2 cut(s)	47, 56
TfiI	GAWTC	5 cut(s)	175, 230, 302, 349, 704
Tru1I	TTAA	5 cut(s)	114, 171, 408, 429, 819
Tru9I	TTAA	5 cut(s)	114, 171, 408, 429, 819
TscAI	CASTG	2 cut(s)	714, 750
TseFI	GTSAC	2 cut(s)	34, 401
TseI	GCWGC	2 cut(s)	362, 646
Tsp45I	GTSAC	2 cut(s)	34, 401
TspDTI	ATGAA	3 cut(s)	306, 705, 1092
TspGWI	ACGGA	1 cut(s)	488
TspRI	CASTG	2 cut(s)	714, 750
Vha464I	CTTAAG	1 cut(s)	170
VpaK11BI	GGWCC	5 cut(s)	106, 382, 581, 786, 829
XceI	RCATGY	4 cut(s)	720, 901, 989, 1104
XcmI	CCANNNNNNNNNTGG	1 cut(s)	910
XmiI	GTMKAC	1 cut(s)	894
XmnI	GAANNNNTTC	1 cut(s)	301
XspI	CTAG	1 cut(s)	192
Zsp2I	ATGCAT	1 cut(s)	718

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.