Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000288

Physical Location & Seq

Genomic Coordinates Forward (+)

32689183 .. 32695362

Gene Structure 6180 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG164400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGGTGATGTCTACGCCAACTGTACATGTGAGAGATACCATTGATCTTGATGAAACTGAAGAGAAGATCTTCGAAAGGCTGCTTGGAACGCTTGACCATTATGGACTTAAGACTGAGCTTCGTGTCGCAGGTGGACGGGTCCGTGATAAGCTTCTGGGAAAAGAGTGCAAGGACATTGACATTGCTTTGGAAGATATGATGGGCAGCAAGTTTGTTGAGAAGGTGAGAGACTACTTGTTGTCTGTGGGGGACGGGGTTCAAGGAATCGCTATCATTCCAAGTAATCCTGATCAATCAAAACATTTGGAAATGGCGAGGATGCGCATCTTAAATGTATGGGTTGATTTTGTGAACTTACGTTGTGAAGAGTACAGCGATGATAGCTGCATTCCCACTATGCAAAAGTATGGCACACCAGAACAGGATGCACTGAGAAGGGATCTAACTATTAACAGGTTCGGATTCATACTAGATGAACAACTAAAGGAAGCTGCTGCCTGTGATGAAGTGAAAGCTGCTCTATCAACTAAAATTAGCAGAGAGCGAGTTGGAGCTGAAATTGATCTGATGATCTCCGGAAACCAACGTGCCCAAGCTATGACCTATATATGTGACTTGAAGTTATTTTGGGTTGTCTTCAGTCTTCATCCACAGTGTGAGCCATCAGAAGGATGCGACAGCGATTGTGTTGCGTACTTGGATTGTACTTGCAATCTTATTCAATTAGTGGGGCACTCTACCTTCAATGACGAACAAAGAAGGCTCTCCTTTTATGCTGCAATGTTCCTTCCACTTAGGAAGACCATGTATAAAGATAGGAAAGCAAAAGATGTTCCTGTCGTGAATTATATTTTCAGAGACTCCCTTAAACAAAGATATCCTCAGTATAGTAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001680 GO:0003674 GO:0003824 GO:0004652 GO:0004810 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005739 GO:0005759 GO:0006139 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0031123 GO:0031974 GO:0034470 GO:0034641 GO:0034660 GO:0042780 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043628 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0052928 GO:0052929 GO:0070013 GO:0070566 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1990817

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

PolyA_pol PolyA_pol_RNAbd

Protein Analysis

298

Amino Acids

34.15

Weight (kDa)

5.41

Isoelectric Point (pI)

39.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PolyA_pol	PF01743	40 - 153	3.6e-19	Poly A polymerase head domain

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: OG0000288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G22660 AT1G22660 AT1G22660 AT1G22660 AT1G22660
fragaria_vesca	FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440
malus_domestica	MD05G1045700.v1.1 MD10G1052700.v1.1
prunus_persica	Prupe.6G147900_v2.0.a1 Prupe.6G147900_v2.0.a1
pyrus_communis	pycom05g03810 pycom10g03770
rosa_chinensis	RchiOBHm_Chr3g0457671 RchiOBHm_Chr4g0411681 RchiOBHm_Chr4g0411871 RchiOBHm_Chr4g0412011 RchiOBHm_Chr4g0442691 RchiOBHm_Chr5g0054011 RchiOBHm_Chr7g0192731 RchiOBHm_Chr7g0217301 RchiOBHm_Chr7g0217311
rosa_laevigata	RLG00000002496 RLG00000002497 RLG00000004333 RLG00000005141 RLG00000005991 RLG00000008329 RLG00000008334
rosa_multiflora	Rmu_co8052866.1_g000001 Rmu_sc0000124.1_g000041 Rmu_sc0000711.1_g000018 Rmu_sc0000711.1_g000026 Rmu_sc0000711.1_g000049 Rmu_sc0001260.1_g000024 Rmu_sc0002040.1_g000016 Rmu_sc0003311.1_g000009 Rmu_sc0003541.1_g000049 Rmu_sc0007633.1_g000011 Rmu_sc0007784.1_g000001 Rmu_sc0007843.1_g000002 Rmu_sc0018873.1_g000007 Rmu_sc0037239.1_g000001 Rmu_ssc0000204.1_g000025
rosa_roxburghii	Rroxscaffold_1G00010150 Rroxscaffold_2G00085070 Rroxscaffold_3G00237950 Rroxscaffold_3G00238000 Rroxscaffold_3G00238060 Rroxscaffold_3G00242460 Rroxscaffold_5G00356230 Rroxscaffold_5G00356320 Rroxscaffold_5G00357990 Rroxscaffold_5G00383500
rosa_rugosa	Rorug04G0107400 Rorug04G0107400 Rorug04G0342400.1 Rorug04G0342500.1 Rorug04G0342600.1 Rorug06G0053100 Rorug06G0099700 Rorug07G0004300 Rorug07G0167800 Rorug07G0167900
rosa_samantha	Rh2CG570300 Rh2DG609200 Rh4AG068500 Rh4AG169600 Rh4AG169900 Rh4AG170200 Rh4AG170600 Rh4AG202600 Rh4AG394800 Rh4BG066700 Rh4BG066800 Rh4BG166500 Rh4BG166600 Rh4BG166700 Rh4BG167000 Rh4BG167300 Rh4BG168500 Rh4BG169200 Rh4BG208600 Rh4BG407700 Rh4CG074000 Rh4CG181100 Rh4CG181200 Rh4CG181700 Rh4CG423100 Rh4DG163900 Rh4DG164400 Rh4DG165100 Rh4DG165200 Rh4DG200000 Rh4DG401800 Rh6BG194500 Rh6CG100200 Rh7AG129300 Rh7AG307100 Rh7BG130700 Rh7BG298000 Rh7CG134100 Rh7DG131500 Rh7DG306700
rosa_wichuraiana	Rw0G007750 Rw4G014080 Rw4G014120 Rw4G014180 Rw4G017150 Rw4G034120 Rw7G011060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	119
Acc16I	TGCGCA	1 cut(s)	323
Acc36I	ACCTGC	1 cut(s)	119
AccI	GTMKAC	1 cut(s)	11
AccIII	TCCGGA	1 cut(s)	575
AclWI	GGATC	1 cut(s)	447
AcuI	CTGAAG	2 cut(s)	78, 622
AdeI	CACNNNGTG	1 cut(s)	656
AfaI	GTAC	4 cut(s)	24, 371, 695, 706
AfiI	CCNNNNNNNGG	1 cut(s)	668
AflII	CTTAAG	1 cut(s)	107
AflIII	ACRYGT	1 cut(s)	25
AgsI	TTSAA	4 cut(s)	260, 619, 722, 745
AjuI	GAANNNNNNNTTGG	2 cut(s)	66, 98
AluBI	AGCT	7 cut(s)	118, 151, 384, 491, 515, 554, 596
AluI	AGCT	7 cut(s)	118, 151, 384, 491, 515, 554, 596
Alw26I	GTCTC	2 cut(s)	222, 852
AlwI	GGATC	1 cut(s)	447
Aor13HI	TCCGGA	1 cut(s)	575
ApeKI	GCWGC	7 cut(s)	79, 204, 384, 491, 494, 515, 776
Asp700I	GAANNNNTTC	1 cut(s)	68
AspLEI	GCGC	1 cut(s)	324
AspS9I	GGNCC	1 cut(s)	139
AsuHPI	GGTGA	2 cut(s)	16, 235
AsuII	TTCGAA	1 cut(s)	72
AvaII	GGWCC	1 cut(s)	139
BaeGI	GKGCMC	2 cut(s)	592, 735
BbsI	GAAGAC	3 cut(s)	628, 635, 806
BbvI	GCAGC	7 cut(s)	66, 216, 371, 478, 481, 502, 763
BccI	CCATC	2 cut(s)	193, 670
BcgI	CGANNNNNNTGC	2 cut(s)	671, 705
BclI	TGATCA	1 cut(s)	289
BcoDI	GTCTC	2 cut(s)	222, 852
BfaI	CTAG	1 cut(s)	470
BfrI	CTTAAG	1 cut(s)	107
BfuAI	ACCTGC	1 cut(s)	119
BglII	AGATCT	1 cut(s)	66
BisI	GCNGC	7 cut(s)	80, 205, 385, 492, 495, 516, 777
BlsI	GCNGC	7 cut(s)	81, 206, 386, 493, 496, 517, 778
Bme18I	GGWCC	1 cut(s)	139
BmgT120I	GGNCC	1 cut(s)	139
BmiI	GGNNCC	1 cut(s)	140
BmsI	GCATC	4 cut(s)	309, 333, 415, 662
BpiI	GAAGAC	3 cut(s)	628, 635, 806
Bpu14I	TTCGAA	1 cut(s)	72
BsaBI	GATNNNNATC	1 cut(s)	323
BsaWI	WCCGGW	1 cut(s)	575
Bsc4I	CCNNNNNNNGG	1 cut(s)	668
Bse3DI	GCAATG	2 cut(s)	180, 786
Bse8I	GATNNNNATC	1 cut(s)	323
BseAI	TCCGGA	1 cut(s)	575
BseGI	GGATG	4 cut(s)	324, 430, 646, 677
BseJI	GATNNNNATC	1 cut(s)	323
BseLI	CCNNNNNNNGG	1 cut(s)	668
BseMI	GCAATG	2 cut(s)	180, 786
BseMII	CTCAG	3 cut(s)	105, 422, 896
BseSI	GKGCMC	2 cut(s)	592, 735
BseXI	GCAGC	7 cut(s)	66, 216, 371, 478, 481, 502, 763
BsiSI	CCGG	1 cut(s)	576
BslFI	GGGAC	1 cut(s)	263
BslI	CCNNNNNNNGG	1 cut(s)	668
BsmAI	GTCTC	2 cut(s)	222, 852
BsmFI	GGGAC	1 cut(s)	263
BsmI	GAATGC	1 cut(s)	387
Bsp119I	TTCGAA	1 cut(s)	72
Bsp1286I	GDGCHC	2 cut(s)	592, 735
Bsp13I	TCCGGA	1 cut(s)	575
Bsp1407I	TGTACA	1 cut(s)	22
Bsp143I	GATC	6 cut(s)	43, 66, 289, 439, 562, 570
BspCNI	CTCAG	3 cut(s)	106, 423, 895
BspEI	TCCGGA	1 cut(s)	575
BspLI	GGNNCC	1 cut(s)	140
BspMI	ACCTGC	1 cut(s)	119
BspPI	GGATC	1 cut(s)	447
BspT104I	TTCGAA	1 cut(s)	72
BspTI	CTTAAG	1 cut(s)	107
BsrDI	GCAATG	2 cut(s)	180, 786
BsrGI	TGTACA	1 cut(s)	22
BssMI	GATC	6 cut(s)	43, 66, 289, 439, 562, 570
Bst4CI	ACNGT	2 cut(s)	22, 654
Bst6I	CTCTTC	2 cut(s)	54, 360
BstAFI	CTTAAG	1 cut(s)	107
BstAUI	TGTACA	1 cut(s)	22
BstBI	TTCGAA	1 cut(s)	72
BstDEI	CTNAG	4 cut(s)	114, 431, 794, 882
BstF5I	GGATG	4 cut(s)	324, 430, 646, 677
BstHHI	GCGC	1 cut(s)	324
BstKTI	GATC	6 cut(s)	46, 69, 292, 442, 565, 573
BstMAI	GTCTC	2 cut(s)	222, 852
BstMBI	GATC	6 cut(s)	43, 66, 289, 439, 562, 570
BstMWI	GCNNNNNNNGC	2 cut(s)	88, 381
BstNSI	RCATGY	1 cut(s)	29
BstSLI	GKGCMC	2 cut(s)	592, 735
BstV1I	GCAGC	7 cut(s)	66, 216, 371, 478, 481, 502, 763
BstV2I	GAAGAC	3 cut(s)	628, 635, 806
BstX2I	RGATCY	2 cut(s)	66, 439
BstYI	RGATCY	2 cut(s)	66, 439
BtgZI	GCGATG	1 cut(s)	390
BtsCI	GGATG	4 cut(s)	324, 430, 646, 677
BtsIMutI	CAGTG	2 cut(s)	428, 659
BveI	ACCTGC	1 cut(s)	119
CfoI	GCGC	1 cut(s)	324
Cfr13I	GGNCC	1 cut(s)	139
Csp6I	GTAC	4 cut(s)	23, 370, 694, 705
CviAII	CATG	2 cut(s)	26, 805
CviQI	GTAC	4 cut(s)	23, 370, 694, 705
DdeI	CTNAG	4 cut(s)	114, 431, 794, 882
DpnI	GATC	6 cut(s)	45, 68, 291, 441, 564, 572
DpnII	GATC	6 cut(s)	43, 66, 289, 439, 562, 570
DraIII	CACNNNGTG	1 cut(s)	656
Eam1104I	CTCTTC	2 cut(s)	54, 360
EarI	CTCTTC	2 cut(s)	54, 360
Eco32I	GATATC	1 cut(s)	878
Eco47I	GGWCC	1 cut(s)	139
Eco57I	CTGAAG	2 cut(s)	78, 622
EcoRV	GATATC	1 cut(s)	878
FaeI	CATG	2 cut(s)	29, 808
FaqI	GGGAC	1 cut(s)	263
FatI	CATG	2 cut(s)	25, 804
FbaI	TGATCA	1 cut(s)	289
FblI	GTMKAC	1 cut(s)	11
Fnu4HI	GCNGC	7 cut(s)	80, 205, 385, 492, 495, 516, 777
FokI	GGATG	4 cut(s)	331, 437, 633, 684
Fsp4HI	GCNGC	7 cut(s)	80, 205, 385, 492, 495, 516, 777
FspAI	RTGCGCAY	1 cut(s)	323
FspBI	CTAG	1 cut(s)	470
FspI	TGCGCA	1 cut(s)	323
GlaI	GCGC	1 cut(s)	323
GluI	GCNGC	7 cut(s)	80, 205, 385, 492, 495, 516, 777
HapII	CCGG	1 cut(s)	576
HhaI	GCGC	1 cut(s)	324
Hin1II	CATG	2 cut(s)	29, 808
Hin6I	GCGC	1 cut(s)	322
HinP1I	GCGC	1 cut(s)	322
HindIII	AAGCTT	1 cut(s)	149
HinfI	GANTC	3 cut(s)	264, 462, 860
HpaII	CCGG	1 cut(s)	576
HphI	GGTGA	2 cut(s)	16, 235
Hpy166II	GTNNAC	3 cut(s)	12, 134, 352
Hpy188I	TCNGA	4 cut(s)	461, 567, 667, 857
Hpy188III	TCNNGA	4 cut(s)	47, 287, 576, 841
Hpy8I	GTNNAC	3 cut(s)	12, 134, 352
HpyAV	CCTTC	6 cut(s)	214, 429, 662, 751, 753, 797
HpyCH4III	ACNGT	2 cut(s)	22, 654
HpyCH4IV	ACGT	2 cut(s)	358, 586
HpyCH4V	TGCA	6 cut(s)	168, 387, 400, 428, 711, 779
HpyF10VI	GCNNNNNNNGC	2 cut(s)	88, 381
HpyF3I	CTNAG	4 cut(s)	114, 431, 794, 882
HpySE526I	ACGT	2 cut(s)	358, 586
Hsp92II	CATG	2 cut(s)	29, 808
HspAI	GCGC	1 cut(s)	322
Kpn2I	TCCGGA	1 cut(s)	575
Ksp22I	TGATCA	1 cut(s)	289
Kzo9I	GATC	6 cut(s)	43, 66, 289, 439, 562, 570
LmnI	GCTCC	1 cut(s)	551
LpnPI	CCDG	9 cut(s)	114, 140, 300, 407, 429, 439, 511, 589, 849
Lsp1109I	GCAGC	7 cut(s)	66, 216, 371, 478, 481, 502, 763
LweI	GCATC	4 cut(s)	309, 333, 415, 662
MaeI	CTAG	1 cut(s)	470
MaeII	ACGT	2 cut(s)	358, 586
MaeIII	GTNAC	1 cut(s)	611
MalI	GATC	6 cut(s)	45, 68, 291, 441, 564, 572
MboI	GATC	6 cut(s)	43, 66, 289, 439, 562, 570
MboII	GAAGA	8 cut(s)	61, 71, 76, 203, 377, 628, 635, 811
MflI	RGATCY	2 cut(s)	66, 439
MhlI	GDGCHC	2 cut(s)	592, 735
MluCI	AATT	4 cut(s)	531, 558, 722, 844
MlyI	GAGTC	1 cut(s)	854
MmeI	TCCRAC	1 cut(s)	529
MnlI	CCTC	2 cut(s)	309, 891
MroI	TCCGGA	1 cut(s)	575
MroXI	GAANNNNTTC	1 cut(s)	68
MseI	TTAA	4 cut(s)	108, 329, 450, 867
MspCI	CTTAAG	1 cut(s)	107
MspI	CCGG	1 cut(s)	576
Mva1269I	GAATGC	1 cut(s)	387
MwoI	GCNNNNNNNGC	2 cut(s)	88, 381
NdeII	GATC	6 cut(s)	43, 66, 289, 439, 562, 570
NlaIII	CATG	2 cut(s)	29, 808
NlaIV	GGNNCC	1 cut(s)	140
NmuCI	GTSAC	1 cut(s)	611
NsbI	TGCGCA	1 cut(s)	323
NspI	RCATGY	1 cut(s)	29
NspV	TTCGAA	1 cut(s)	72
PaqCI	CACCTGC	1 cut(s)	119
PciI	ACATGT	1 cut(s)	25
PctI	GAATGC	1 cut(s)	387
PdmI	GAANNNNTTC	1 cut(s)	68
PfeI	GAWTC	2 cut(s)	264, 462
PkrI	GCNGC	7 cut(s)	81, 206, 386, 493, 496, 517, 778
PleI	GAGTC	1 cut(s)	854
PpsI	GAGTC	1 cut(s)	854
PscI	ACATGT	1 cut(s)	25
PspN4I	GGNNCC	1 cut(s)	140
PspPI	GGNCC	1 cut(s)	139
PsuI	RGATCY	2 cut(s)	66, 439
RsaI	GTAC	4 cut(s)	24, 371, 695, 706
RsaNI	GTAC	4 cut(s)	23, 370, 694, 705
SaqAI	TTAA	4 cut(s)	108, 329, 450, 867
SatI	GCNGC	7 cut(s)	80, 205, 385, 492, 495, 516, 777
Sau3AI	GATC	6 cut(s)	43, 66, 289, 439, 562, 570
Sau96I	GGNCC	1 cut(s)	139
SchI	GAGTC	1 cut(s)	854
SduI	GDGCHC	2 cut(s)	592, 735
SfaNI	GCATC	4 cut(s)	309, 333, 415, 662
SfuI	TTCGAA	1 cut(s)	72
SinI	GGWCC	1 cut(s)	139
SmlI	CTYRAG	1 cut(s)	107
SmoI	CTYRAG	1 cut(s)	107
Sse9I	AATT	4 cut(s)	531, 558, 722, 844
SspMI	CTAG	1 cut(s)	470
TaaI	ACNGT	2 cut(s)	22, 654
TaiI	ACGT	2 cut(s)	361, 589
TaqI	TCGA	1 cut(s)	72
TasI	AATT	4 cut(s)	531, 558, 722, 844
TatI	WGTACW	3 cut(s)	22, 369, 704
TfiI	GAWTC	2 cut(s)	264, 462
Tru1I	TTAA	4 cut(s)	108, 329, 450, 867
Tru9I	TTAA	4 cut(s)	108, 329, 450, 867
TscAI	CASTG	2 cut(s)	435, 659
TseFI	GTSAC	1 cut(s)	611
TseI	GCWGC	7 cut(s)	79, 204, 384, 491, 494, 515, 776
Tsp45I	GTSAC	1 cut(s)	611
TspDTI	ATGAA	5 cut(s)	66, 454, 489, 519, 635
TspGWI	ACGGA	1 cut(s)	131
TspRI	CASTG	2 cut(s)	435, 659
Vha464I	CTTAAG	1 cut(s)	107
VpaK11BI	GGWCC	1 cut(s)	139
XceI	RCATGY	1 cut(s)	29
XmiI	GTMKAC	1 cut(s)	11
XmnI	GAANNNNTTC	1 cut(s)	68
XspI	CTAG	1 cut(s)	470

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