0  structures 29  species 49  sequences

Family: snoMe28S-G3255 (RF00527)

Description: Small nucleolar RNA Me28S-Gm3255

Summary

Clan

This family is a member of clan (CL00066), which contains the following 5 members:

sn2903 snoMe28S-G3255 snoR1 SNORD60 snosnR48

Wikipedia annotation Edit Wikipedia article

The Rfam group coordinates the annotation of Rfam families in Wikipedia. This family is described by a Wikipedia entry Small nucleolar RNA Me28S-Gm3255. More...

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

Sequences

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Table view (49 sequence regions)

Original order Download FASTA Accession Bit score Type Start End Description Species View context
0
AC008186.5 N/A seed 23,701 23,785 Drosophila melanogaster, chromosome 2R, region 45A-46A, BAC clone BACR10M14, complete sequence. Drosophila melanogaster (fruit fly) ENA graphic
1
AC008186.5 N/A seed 24,468 24,549 Drosophila melanogaster, chromosome 2R, region 45A-46A, BAC clone BACR10M14, complete sequence. Drosophila melanogaster (fruit fly) ENA graphic
2
AAPP01018724.1 N/A seed 106,634 106,550 Drosophila ananassae strain TSC#14024-0371.13 Ctg01_18746, whole genome shotgun sequence. Drosophila ananassae ENA graphic
3
AAEU02000094.1 N/A seed 193,595 193,512 Drosophila yakuba strain Tai18E2 chromosome 2L v2_Cont1.39, whole genome shotgun sequence. Drosophila yakuba ENA graphic
4
AAFS01000046.1 N/A seed 161,956 162,039 Drosophila pseudoobscura pseudoobscura strain MV2-25 3207210, whole genome shotgun sequence. Drosophila pseudoobscura pseudoobscura ENA graphic
5
AAGH01023660.1 N/A seed 5,285 5,360 Drosophila simulans strain white501 chromosome 2R Cont36.73, whole genome shotgun sequence. Drosophila simulans ENA graphic
6
AAPQ01007360.1 N/A seed 2,428,596 2,428,511 Drosophila erecta strain TSC#14021-0224.01 Ctg01_7359, whole genome shotgun sequence. Drosophila erecta ENA graphic
7
AASS01036184.1 N/A seed 1,711 1,633 Drosophila simulans strain MD106TS Cont471.2, whole genome shotgun sequence. Drosophila simulans ENA graphic
8
AAKO01000502.1 N/A seed 98,060 98,140 Drosophila sechellia strain Rob3c cont1.000501, whole genome shotgun sequence. Drosophila sechellia ENA graphic
9
AAEU02000094.1 N/A seed 192,782 192,704 Drosophila yakuba strain Tai18E2 chromosome 2L v2_Cont1.39, whole genome shotgun sequence. Drosophila yakuba ENA graphic
0
AE013599.5 100.40 full 9,096,763 9,096,844 Drosophila melanogaster chromosome 2R. Drosophila melanogaster (fruit fly) ENA graphic
1
CM000164.1 93.70 full 3,752,062 3,752,140 CM000164.1 Drosophila simulans strain white501 chromosome 2R, whole genome shotgun sequence Drosophila simulans ENA graphic
2
CH480816.1 93.40 full 2,622,516 2,622,596 Drosophila sechellia strain Rob3c scaffold_1 genomic scaffold, whole genome shotgun sequence. Drosophila sechellia ENA graphic
3
NW_016055718.1 90.90 full 81,653 81,733 NW_016055718.1 Drosophila rhopaloa unplaced genomic scaffold, Drho_2.0 scf7180000773652, whole genome shotgun sequence Drosophila rhopaloa ENA graphic
4
CH479183.1 87.20 full 5,021,081 5,021,164 CH479183.1 Drosophila persimilis strain MSH-3 scaffold_4 genomic scaffold, whole genome shotgun sequence Drosophila persimilis ENA graphic
5
NC_046680.1 87.20 full 13,431,226 13,431,309 NC_046680.1 Drosophila pseudoobscura strain MV2-25 chromosome 3, UCI_Dpse_MV25, whole genome shotgun sequence Drosophila pseudoobscura pseudoobscura ENA graphic
6
CH902619.1 86.30 full 3,513,783 3,513,699 CH902619.1 Drosophila ananassae strain TSC#14024-0371.13 scaffold_13266 genomic scaffold, whole genome shotgun sequence Drosophila ananassae ENA graphic
7
CH480816.1 85.80 full 2,621,746 2,621,830 Drosophila sechellia strain Rob3c scaffold_1 genomic scaffold, whole genome shotgun sequence. Drosophila sechellia ENA graphic
8
CM000164.1 85.80 full 3,751,286 3,751,370 CM000164.1 Drosophila simulans strain white501 chromosome 2R, whole genome shotgun sequence Drosophila simulans ENA graphic
9
NW_016067408.1 84.80 full 2,424,060 2,423,977 NW_016067408.1 Drosophila kikkawai unplaced genomic scaffold, Dkik_2.0 scf7180000302476, whole genome shotgun sequence Drosophila kikkawai ENA graphic
10
AE013599.5 82.80 full 9,095,996 9,096,080 Drosophila melanogaster chromosome 2R. Drosophila melanogaster (fruit fly) ENA graphic
11
JAMKOV010000007.1 82.40 full 852,118 852,196 JAMKOV010000007.1 Drosophila gunungcola strain Sukarami chromosome 2R 000006F, whole genome shotgun sequence Drosophila gunungcola ENA graphic
12
NW_016055718.1 80.80 full 80,788 80,872 NW_016055718.1 Drosophila rhopaloa unplaced genomic scaffold, Drho_2.0 scf7180000773652, whole genome shotgun sequence Drosophila rhopaloa ENA graphic
13
JAMKOV010000007.1 79.90 full 851,279 851,363 JAMKOV010000007.1 Drosophila gunungcola strain Sukarami chromosome 2R 000006F, whole genome shotgun sequence Drosophila gunungcola ENA graphic
14
NW_016067408.1 78.90 full 2,424,301 2,424,216 NW_016067408.1 Drosophila kikkawai unplaced genomic scaffold, Dkik_2.0 scf7180000302476, whole genome shotgun sequence Drosophila kikkawai ENA graphic
15
CH479183.1 73.20 full 5,020,795 5,020,876 CH479183.1 Drosophila persimilis strain MSH-3 scaffold_4 genomic scaffold, whole genome shotgun sequence Drosophila persimilis ENA graphic
16
NC_046680.1 72.10 full 13,430,941 13,431,021 NC_046680.1 Drosophila pseudoobscura strain MV2-25 chromosome 3, UCI_Dpse_MV25, whole genome shotgun sequence Drosophila pseudoobscura pseudoobscura ENA graphic
17
NC_047629.2 59.60 full 16,989,667 16,989,749 NC_047629.2 Drosophila albomicans strain 15112-1751.03 chromosome 3, ASM965048v2, whole genome shotgun sequence Drosophila albomicans ENA graphic
18
CH964282.1 56.40 full 3,773,231 3,773,312 CH964282.1 Drosophila willistoni strain TSC#14030-0811.24 scf2_1100000004954 genomic scaffold, whole genome shotgun sequence Drosophila willistoni ENA graphic
19
LR899009.1 56.10 full 30,544,537 30,544,619 LR899009.1 Hermetia illucens genome assembly, chromosome: 1 Hermetia illucens ENA graphic
20
WJQU01001944.1 55.50 full 23,365 23,447 WJQU01001944.1 Pseudolycoriella hygida isolate HSMRA1968 HiC_scaffold_1944, whole genome shotgun sequence Bradysia hygida ENA graphic
21
CAJVCH010250071.1 51.00 full 129 49 CAJVCH010250071.1 Allacma fusca genome assembly, contig: NODE_327101, whole genome shotgun sequence Allacma fusca ENA graphic
22
JACASF010000005.1 50.50 full 44,996,767 44,996,838 JACASF010000005.1 Molossus molossus isolate mMolMol1 scaffold_m16_p_5, whole genome shotgun sequence Molossus molossus (Pallas's mastiff bat) ENA graphic
23
CP012524.1 50.50 full 7,566,245 7,566,164 Drosophila busckii chromosome 2R sequence. Drosophila busckii ENA graphic
24
NW_022060529.1 49.70 full 21,960,010 21,960,089 NW_022060529.1 Scaptodrosophila lebanonensis strain 11010-0011.00,11010-0021.00 unplaced genomic scaffold, SlebRS2 tig00000001-arrow-pilon, whole genome shotgun sequence Scaptodrosophila lebanonensis ENA graphic
25
LSRL02000007.1 49.40 full 310,167 310,244 LSRL02000007.1 Drosophila navojoa isolate navoj_Jal97 7, whole genome shotgun sequence Drosophila navojoa ENA graphic
26
LJIJ01000034.1 49.00 full 355,174 355,254 Orchesella cincta Ocin01_Sc0034, whole genome shotgun sequence. Orchesella cincta ENA graphic
27
CAJVCH010253372.1 48.50 full 129 49 CAJVCH010253372.1 Allacma fusca genome assembly, contig: NODE_330105, whole genome shotgun sequence Allacma fusca ENA graphic
28
CH933808.1 48.30 full 5,124,513 5,124,589 CH933808.1 Drosophila mojavensis strain TSC#15081-1352.22 scaffold_6496 genomic scaffold, whole genome shotgun sequence Drosophila mojavensis ENA graphic
29
NCKV01000766.1 47.80 full 6,435 6,514 NCKV01000766.1 Leptotrombidium deliense isolate UoL-UT scaffold0000000767, whole genome shotgun sequence Leptotrombidium deliense ENA graphic
30
CM019174.2 47.10 full 12,822,685 12,822,607 CM019174.2 Apolygus lucorum isolate 12Hb linkage group LG16, whole genome shotgun sequence Apolygus lucorum ENA graphic
31
CM019174.2 47.00 full 12,833,888 12,833,810 CM019174.2 Apolygus lucorum isolate 12Hb linkage group LG16, whole genome shotgun sequence Apolygus lucorum ENA graphic
32
CH940648.1 46.20 full 367,281 367,201 CH940648.1 Drosophila virilis strain TSC#15010-1051.87 scaffold_12875 genomic scaffold, whole genome shotgun sequence Drosophila virilis ENA graphic
33
CM019174.2 45.90 full 12,822,493 12,822,415 CM019174.2 Apolygus lucorum isolate 12Hb linkage group LG16, whole genome shotgun sequence Apolygus lucorum ENA graphic
34
CAJHJT010000056.1 45.50 full 37,916,990 37,916,913 CAJHJT010000056.1 Ceratitis capitata strain EGII genome assembly, contig: scaffold_6, whole genome shotgun sequence Ceratitis capitata (Mediterranean fruit fly) ENA graphic
35
NW_015381949.1 45.40 full 191,710 191,790 NW_015381949.1 Neodiprion lecontei isolate Nlec_01 unplaced genomic scaffold, Nlec1.0, whole genome shotgun sequence Neodiprion lecontei ENA graphic
36
CM019174.2 45.40 full 12,822,263 12,822,185 CM019174.2 Apolygus lucorum isolate 12Hb linkage group LG16, whole genome shotgun sequence Apolygus lucorum ENA graphic
37
ADMH02000483.1 45.10 full 92,906 92,825 Anopheles darlingi Cont2812, whole genome shotgun sequence. Anopheles darlingi ENA graphic
38
CH964282.1 44.30 full 3,774,143 3,774,224 CH964282.1 Drosophila willistoni strain TSC#14030-0811.24 scf2_1100000004954 genomic scaffold, whole genome shotgun sequence Drosophila willistoni ENA graphic
39
OV725079.1 44.30 full 44,068,252 44,068,163 OV725079.1 Nezara viridula genome assembly, chromosome: 3 Nezara viridula (southern green stink bug) ENA graphic

Alignment

There are various ways to view or download the seed alignments that we store. You can use a sequence viewer to look at them, or you can look at a plain text version of the sequence in a variety of different formats. More...

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Alignment format:
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Secondary structure

This section shows a variety of different secondary structure representations for this family. More...

You can view the secondary structure of the family using the VARNA applet. You can see more information about VARNA iself here.

Species distribution

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Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

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References

This section shows the database cross-references that we have for this Rfam family.

Literature references

  1. Huang ZP, Zhou H, He HL, Chen CL, Liang D, Qu LH RNA. 2005;11:1303-1316. Genome-wide analyses of two families of snoRNA genes from Drosophila melanogaster, demonstrating the extensive utilization of introns for coding of snoRNAs. PUBMED:15987805

  2. Kiss T; Cell 2002;109:145-148. Small nucleolar RNAs: an abundant group of noncoding RNAs with diverse cellular functions. PUBMED:12007400

External database links

Curation and family details

This section shows the detailed information about the Rfam family. We're happy to receive updated or improved alignments for new or existing families. Submit your new alignment and we'll take a look.

Curation

Seed source PMID:15987805
Structure source Predicted; PFOLD; Moxon SJ, Daub J
Type Gene; snRNA; snoRNA; CD-box;
Author Moxon SJORCID logo
Alignment details
Alignment Number of
sequences
full 39
seed 10

Model information

Build commands
cmbuild -F CM SEED
cmcalibrate --mpi CM
Search command
cmsearch --cpu 4 --verbose --nohmmonly -T 38.93 -Z 2958934 CM SEQDB
Gathering cutoff 44.0
Trusted cutoff 44.3
Noise cutoff 43.8
Covariance model Download
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