Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0011422

Physical Location & Seq

Genomic Coordinates Reverse (-)

6834421 .. 6837073

Gene Structure 2653 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000026896

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1128 bp

ATGGAGAAGGAGCTGTTGGAGGTGTTTGACGACGTGACGAAGGCGGCCGACGCCGCGAAATCGTGCGACGGTGGCGCCGAGGAAAGTCTCTGTCTTGAGGCCTTGGACCGCCTGAATAATTTTCCCGTCTCTTATCAGCTTCTCGTCTCAACCCAAGTTGGGAAGCGTCTTAAGAATCTCACAAAACATCCTAGAAAGAAAATCCAGACTTTTGCGCTTAGCTTGATGGAATCATGGAAACAAATTGTCATTGAGGAAACATCAAAAAACGATGTGAAGAATGGCAGGTATGAAAGAAAAGATTCGCTAAAGCGTGAGTCAAATCCCAATAGTCCCAGGCCTGAGAAGATTCAGAAAACTGCTGCTGTGAAGGTTGAGAAGGTCCCCAAGGCTGAACAGGGTGACATTAAGAAGGTTGATCGTGATGTTAAACCAAGCTCAGAGAAAGCATATAGTTCTGAAAGTGGGACAACGGATAGTAAGGTTGAAAATCATAATGTTGTCAAGACTGAGAAAGCGGATAATGTCAAGGTTGAAAAAGTAGCCAGAGAAGTGAAGAAACCTGTGTCTGGTCCCCCAAAGTTGACATCTATACCAAAGTCTAATGATCAGGCAAGGGACAAAGTAAGGGGAATGCTGCATGAGGCTTTGTCCAAGGTTTCCCAGGAGTCTGAGGCTAATGAAAGATTTGTGGATTCAGTGAATGCATGTGACCCAATTAGAGTTGCTGTTACAGTGGAGTCTGTGCTGTTTGAGAACTGGGGTGGTTCCAATGGGTCCCAGAAGGCTAAGTACCGATCACTAATTTTTAACCTGAAAGACCAAAAGAACCCAGATTTTCGCAGAAAAGTTCTTCTTGGAGATATCGAGGCAGAGAGGCTTGTAGACATGTCCACAGCTGAAATGGCAAGTGATGAGAGGCAGTCAGAGAATAAAAAGCTCGAAGAAAAGGCATTGTTTGAGTGTGAGCGTGGAGCTGCACCAAAAGCCACAACTGATCAATTCAAATGTGGTCGATGTGGGAAACGCAAGACCACCTACTACCAGATGCAGACGCGGAGTGCCGATGAACCTATGACAACATATGTAACATGTGTAAACTGCAATAACCGTTGGAAGTTCTGTTAG

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

376

Amino Acids

42.28

Weight (kDa)

8.98

Isoelectric Point (pI)

35.52

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	202 - 322	1.6e-35	Transcription factor S-II (TFIIS), central domain
Zn_ribbon_TFIIS	PF01096	335 - 373	7.5e-19	Transcription factor S-II (TFIIS)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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)	885
AccII	CGCG	2 cut(s)	56, 1057
AciI	CCGC	5 cut(s)	44, 54, 109, 518, 1057
AcoI	YGGCCR	1 cut(s)	45
AcyI	GRCGYC	2 cut(s)	51, 75
AfaI	GTAC	1 cut(s)	794
AfiI	CCNNNNNNNGG	2 cut(s)	159, 569
AflII	CTTAAG	1 cut(s)	170
AflIII	ACRYGT	2 cut(s)	888, 1091
AgsI	TTSAA	3 cut(s)	488, 536, 1006
AjiI	CACGTC	1 cut(s)	34
AjnI	CCWGG	2 cut(s)	335, 663
AjuI	GAANNNNNNNTTGG	1 cut(s)	31
AluBI	AGCT	7 cut(s)	13, 139, 222, 438, 899, 940, 977
AluI	AGCT	7 cut(s)	13, 139, 222, 438, 899, 940, 977
Alw26I	GTCTC	3 cut(s)	92, 133, 151
AoxI	GGCC	3 cut(s)	45, 99, 338
ApeKI	GCWGC	3 cut(s)	362, 637, 977
Asp700I	GAANNNNTTC	1 cut(s)	301
AspLEI	GCGC	2 cut(s)	77, 217
AspS9I	GGNCC	4 cut(s)	106, 382, 572, 777
AsuHPI	GGTGA	1 cut(s)	413
AvaII	GGWCC	4 cut(s)	106, 382, 572, 777
BanI	GGYRCC	1 cut(s)	74
BarI	GAAGNNNNNNTAC	2 cut(s)	776, 808
BbvI	GCAGC	3 cut(s)	349, 624, 964
BccI	CCATC	1 cut(s)	220
BciT130I	CCWGG	2 cut(s)	337, 665
BclI	TGATCA	2 cut(s)	607, 997
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	5 cut(s)	45, 54, 363, 638, 978
BlpI	GCTNAGC	1 cut(s)	218
BlsI	GCNGC	5 cut(s)	46, 55, 364, 639, 979
Bme1390I	CCNGG	2 cut(s)	337, 665
Bme18I	GGWCC	4 cut(s)	106, 382, 572, 777
BmgBI	CACGTC	1 cut(s)	34
BmgT120I	GGNCC	4 cut(s)	106, 382, 572, 777
BmiI	GGNNCC	6 cut(s)	76, 384, 574, 769, 778, 779
BmrFI	CCNGG	2 cut(s)	337, 665
BmrI	ACTGGG	1 cut(s)	769
BmsI	GCATC	1 cut(s)	1038
BmuI	ACTGGG	1 cut(s)	769
Bpu1102I	GCTNAGC	1 cut(s)	218
BpuEI	CTTGAG	1 cut(s)	116
BsaHI	GRCGYC	2 cut(s)	51, 75
BsaJI	CCNNGG	6 cut(s)	78, 102, 335, 387, 654, 663
Bsc4I	CCNNNNNNNGG	2 cut(s)	159, 569
Bse1I	ACTGG	1 cut(s)	764
BseBI	CCWGG	2 cut(s)	337, 665
BseDI	CCNNGG	6 cut(s)	78, 102, 335, 387, 654, 663
BseGI	GGATG	1 cut(s)	187
BseLI	CCNNNNNNNGG	2 cut(s)	159, 569
BseMII	CTCAG	4 cut(s)	333, 453, 501, 663
BseNI	ACTGG	1 cut(s)	764
BseX3I	CGGCCG	1 cut(s)	45
BseXI	GCAGC	3 cut(s)	349, 624, 964
BsgI	GTGCAG	1 cut(s)	963
Bsh1236I	CGCG	2 cut(s)	56, 1057
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, 558, 632, 763
BslI	CCNNNNNNNGG	2 cut(s)	159, 569
BsmAI	GTCTC	3 cut(s)	92, 133, 151
BsmBI	CGTCTC	2 cut(s)	133, 151
BsmFI	GGGAC	6 cut(s)	318, 368, 481, 558, 632, 763
BsmI	GAATGC	2 cut(s)	639, 709
BsnI	GGCC	3 cut(s)	47, 101, 340
Bsp143I	GATC	4 cut(s)	418, 607, 797, 997
Bsp1720I	GCTNAGC	1 cut(s)	218
BspACI	CCGC	5 cut(s)	44, 54, 109, 518, 1057
BspANI	GGCC	3 cut(s)	47, 101, 340
BspCNI	CTCAG	4 cut(s)	334, 452, 502, 664
BspFNI	CGCG	2 cut(s)	56, 1057
BspLI	GGNNCC	6 cut(s)	76, 384, 574, 769, 778, 779
BspMI	ACCTGC	1 cut(s)	276
BspT107I	GGYRCC	1 cut(s)	74
BspTI	CTTAAG	1 cut(s)	170
BsrI	ACTGG	1 cut(s)	764
BssECI	CCNNGG	6 cut(s)	78, 102, 335, 387, 654, 663
BssMI	GATC	4 cut(s)	418, 607, 797, 997
BssNI	GRCGYC	2 cut(s)	51, 75
BssT1I	CCWWGG	3 cut(s)	102, 387, 654
Bst2UI	CCWGG	2 cut(s)	337, 665
Bst4CI	ACNGT	3 cut(s)	71, 736, 1112
BstACI	GRCGYC	2 cut(s)	51, 75
BstAFI	CTTAAG	1 cut(s)	170
BstDEI	CTNAG	6 cut(s)	218, 342, 439, 510, 672, 789
BstF5I	GGATG	1 cut(s)	187
BstFNI	CGCG	2 cut(s)	56, 1057
BstH2I	RGCGCY	1 cut(s)	78
BstHHI	GCGC	2 cut(s)	77, 217
BstKTI	GATC	4 cut(s)	421, 610, 800, 1000
BstMAI	GTCTC	3 cut(s)	92, 133, 151
BstMBI	GATC	4 cut(s)	418, 607, 797, 997
BstMCI	CGRYCG	1 cut(s)	48
BstMWI	GCNNNNNNNGC	5 cut(s)	50, 53, 72, 905, 986
BstNI	CCWGG	2 cut(s)	337, 665
BstNSI	RCATGY	3 cut(s)	711, 892, 1095
BstSCI	CCNGG	2 cut(s)	335, 663
BstUI	CGCG	2 cut(s)	56, 1057
BstV1I	GCAGC	3 cut(s)	349, 624, 964
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)	705, 741
BveI	ACCTGC	1 cut(s)	276
CfoI	GCGC	2 cut(s)	77, 217
Cfr13I	GGNCC	4 cut(s)	106, 382, 572, 777
CseI	GACGC	3 cut(s)	59, 155, 1063
Csp6I	GTAC	1 cut(s)	793
CviAII	CATG	5 cut(s)	234, 641, 708, 889, 1092
CviQI	GTAC	1 cut(s)	793
DdeI	CTNAG	6 cut(s)	218, 342, 439, 510, 672, 789
DinI	GGCGCC	1 cut(s)	76
DpnI	GATC	4 cut(s)	420, 609, 799, 999
DpnII	GATC	4 cut(s)	418, 607, 797, 997
EaeI	YGGCCR	1 cut(s)	45
EagI	CGGCCG	1 cut(s)	45
EclXI	CGGCCG	1 cut(s)	45
Eco130I	CCWWGG	3 cut(s)	102, 387, 654
Eco147I	AGGCCT	2 cut(s)	101, 340
Eco32I	GATATC	1 cut(s)	865
Eco47I	GGWCC	4 cut(s)	106, 382, 572, 777
Eco52I	CGGCCG	1 cut(s)	45
EcoO109I	RGGNCCY	2 cut(s)	382, 777
EcoRII	CCWGG	2 cut(s)	335, 663
EcoRV	GATATC	1 cut(s)	865
EcoT14I	CCWWGG	3 cut(s)	102, 387, 654
EcoT22I	ATGCAT	1 cut(s)	709
EgeI	GGCGCC	1 cut(s)	76
EheI	GGCGCC	1 cut(s)	76
ErhI	CCWWGG	3 cut(s)	102, 387, 654
Esp3I	CGTCTC	2 cut(s)	133, 151
FaeI	CATG	5 cut(s)	237, 644, 711, 892, 1095
FalI	AAGNNNNNCTT	2 cut(s)	840, 872
FaqI	GGGAC	6 cut(s)	318, 368, 481, 558, 632, 763
FatI	CATG	5 cut(s)	233, 640, 707, 888, 1091
FauNDI	CATATG	1 cut(s)	1084
FbaI	TGATCA	2 cut(s)	607, 997
FblI	GTMKAC	1 cut(s)	885
Fnu4HI	GCNGC	5 cut(s)	45, 54, 363, 638, 978
FokI	GGATG	1 cut(s)	174
Fsp4HI	GCNGC	5 cut(s)	45, 54, 363, 638, 978
FspBI	CTAG	1 cut(s)	192
GlaI	GCGC	2 cut(s)	76, 216
GluI	GCNGC	5 cut(s)	45, 54, 363, 638, 978
HaeII	RGCGCY	1 cut(s)	78
HaeIII	GGCC	3 cut(s)	47, 101, 340
HgaI	GACGC	3 cut(s)	59, 155, 1063
HhaI	GCGC	2 cut(s)	77, 217
Hin1I	GRCGYC	2 cut(s)	51, 75
Hin1II	CATG	5 cut(s)	237, 644, 711, 892, 1095
Hin6I	GCGC	2 cut(s)	75, 215
HinP1I	GCGC	2 cut(s)	75, 215
HincII	GTYRAC	1 cut(s)	585
HindII	GTYRAC	1 cut(s)	585
HinfI	GANTC	8 cut(s)	175, 230, 302, 317, 349, 668, 695, 740
HphI	GGTGA	1 cut(s)	413
Hpy166II	GTNNAC	4 cut(s)	585, 886, 894, 1099
Hpy188I	TCNGA	5 cut(s)	354, 442, 460, 673, 928
Hpy188III	TCNNGA	4 cut(s)	95, 205, 422, 505
Hpy8I	GTNNAC	4 cut(s)	585, 886, 894, 1099
Hpy99I	CGWCG	3 cut(s)	35, 53, 71
HpyAV	CCTTC	5 cut(s)	34, 364, 373, 406, 778
HpyCH4III	ACNGT	3 cut(s)	71, 736, 1112
HpyCH4IV	ACGT	1 cut(s)	33
HpyCH4V	TGCA	5 cut(s)	640, 707, 980, 1051, 1104
HpyF10VI	GCNNNNNNNGC	5 cut(s)	50, 53, 72, 905, 986
HpyF3I	CTNAG	6 cut(s)	218, 342, 439, 510, 672, 789
HpySE526I	ACGT	1 cut(s)	33
Hsp92I	GRCGYC	2 cut(s)	51, 75
Hsp92II	CATG	5 cut(s)	237, 644, 711, 892, 1095
HspAI	GCGC	2 cut(s)	75, 215
KasI	GGCGCC	1 cut(s)	74
KflI	GGGWCCC	1 cut(s)	777
Ksp22I	TGATCA	2 cut(s)	607, 997
Kzo9I	GATC	4 cut(s)	418, 607, 797, 997
LmnI	GCTCC	2 cut(s)	10, 974
Lsp1109I	GCAGC	3 cut(s)	349, 624, 964
LweI	GCATC	1 cut(s)	1038
MaeI	CTAG	1 cut(s)	192
MaeII	ACGT	1 cut(s)	33
MaeIII	GTNAC	5 cut(s)	34, 401, 710, 730, 1087
MalI	GATC	4 cut(s)	420, 609, 799, 999
MboI	GATC	4 cut(s)	418, 607, 797, 997
MboII	GAAGA	5 cut(s)	289, 358, 568, 845, 956
MluCI	AATT	5 cut(s)	118, 243, 717, 804, 1001
Mly113I	GGCGCC	1 cut(s)	75
MlyI	GAGTC	3 cut(s)	326, 677, 749
MmeI	TCCRAC	1 cut(s)	1094
MnlI	CCTC	9 cut(s)	13, 73, 91, 247, 637, 667, 862, 870, 912
Mph1103I	ATGCAT	1 cut(s)	709
MroXI	GAANNNNTTC	1 cut(s)	301
MseI	TTAA	4 cut(s)	171, 408, 429, 810
MspA1I	CMGCKG	1 cut(s)	899
MspCI	CTTAAG	1 cut(s)	170
MspR9I	CCNGG	2 cut(s)	337, 665
Mva1269I	GAATGC	2 cut(s)	639, 709
MvaI	CCWGG	2 cut(s)	337, 665
MvnI	CGCG	2 cut(s)	56, 1057
MwoI	GCNNNNNNNGC	5 cut(s)	50, 53, 72, 905, 986
NarI	GGCGCC	1 cut(s)	75
NdeI	CATATG	1 cut(s)	1084
NdeII	GATC	4 cut(s)	418, 607, 797, 997
NlaIII	CATG	5 cut(s)	237, 644, 711, 892, 1095
NlaIV	GGNNCC	6 cut(s)	76, 384, 574, 769, 778, 779
NmeAIII	GCCGAG	1 cut(s)	103
NmuCI	GTSAC	3 cut(s)	34, 401, 710
NsiI	ATGCAT	1 cut(s)	709
NspI	RCATGY	3 cut(s)	711, 892, 1095
PceI	AGGCCT	2 cut(s)	101, 340
PciI	ACATGT	2 cut(s)	888, 1091
PcsI	WCGNNNNNNNCGW	1 cut(s)	75
PctI	GAATGC	2 cut(s)	639, 709
PdmI	GAANNNNTTC	1 cut(s)	301
PfeI	GAWTC	5 cut(s)	175, 230, 302, 349, 695
PkrI	GCNGC	5 cut(s)	46, 55, 364, 639, 979
PleI	GAGTC	3 cut(s)	325, 676, 748
PluTI	GGCGCC	1 cut(s)	78
PpsI	GAGTC	3 cut(s)	325, 676, 748
PpuMI	RGGWCCY	2 cut(s)	382, 777
PscI	ACATGT	2 cut(s)	888, 1091
Psp5II	RGGWCCY	2 cut(s)	382, 777
Psp6I	CCWGG	2 cut(s)	335, 663
PspGI	CCWGG	2 cut(s)	335, 663
PspN4I	GGNNCC	6 cut(s)	76, 384, 574, 769, 778, 779
PspPI	GGNCC	4 cut(s)	106, 382, 572, 777
PspPPI	RGGWCCY	2 cut(s)	382, 777
PvuII	CAGCTG	1 cut(s)	899
RsaI	GTAC	1 cut(s)	794
RsaNI	GTAC	1 cut(s)	793
SaqAI	TTAA	4 cut(s)	171, 408, 429, 810
SatI	GCNGC	5 cut(s)	45, 54, 363, 638, 978
Sau3AI	GATC	4 cut(s)	418, 607, 797, 997
Sau96I	GGNCC	4 cut(s)	106, 382, 572, 777
SchI	GAGTC	3 cut(s)	326, 677, 749
ScrFI	CCNGG	2 cut(s)	337, 665
SfaNI	GCATC	1 cut(s)	1038
SfoI	GGCGCC	1 cut(s)	76
SinI	GGWCC	4 cut(s)	106, 382, 572, 777
SmlI	CTYRAG	2 cut(s)	95, 170
SmoI	CTYRAG	2 cut(s)	95, 170
Sse9I	AATT	5 cut(s)	118, 243, 717, 804, 1001
SseBI	AGGCCT	2 cut(s)	101, 340
SsiI	CCGC	5 cut(s)	44, 54, 109, 518, 1057
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, 663
StyI	CCWWGG	3 cut(s)	102, 387, 654
TaaI	ACNGT	3 cut(s)	71, 736, 1112
TaiI	ACGT	1 cut(s)	36
TaqI	TCGA	3 cut(s)	867, 942, 1015
TasI	AATT	5 cut(s)	118, 243, 717, 804, 1001
TauI	GCSGC	2 cut(s)	47, 56
TfiI	GAWTC	5 cut(s)	175, 230, 302, 349, 695
Tru1I	TTAA	4 cut(s)	171, 408, 429, 810
Tru9I	TTAA	4 cut(s)	171, 408, 429, 810
TscAI	CASTG	2 cut(s)	705, 741
TseFI	GTSAC	3 cut(s)	34, 401, 710
TseI	GCWGC	3 cut(s)	362, 637, 977
Tsp45I	GTSAC	3 cut(s)	34, 401, 710
TspDTI	ATGAA	3 cut(s)	306, 696, 1083
TspGWI	ACGGA	1 cut(s)	488
TspRI	CASTG	2 cut(s)	705, 741
Vha464I	CTTAAG	1 cut(s)	170
VpaK11BI	GGWCC	4 cut(s)	106, 382, 572, 777
XceI	RCATGY	3 cut(s)	711, 892, 1095
XcmI	CCANNNNNNNNNTGG	1 cut(s)	901
XmiI	GTMKAC	1 cut(s)	885
XmnI	GAANNNNTTC	1 cut(s)	301
XspI	CTAG	1 cut(s)	192
Zsp2I	ATGCAT	1 cut(s)	709

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