Protein : Qrob_P0348940.2 Q. robur
Protein Identifier  ? Qrob_P0348940.2 Organism . Name  Quercus robur
Score  69.2 Score Type  egn
Protein Description  (M=2) PTHR10501:SF0 - SMALL NUCLEAR RIBONUCLEOPROTEIN Gene Prediction Quality  validated
Protein length 

Sequence

Length: 234  
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0 Synonyms

4 GO Terms

Identifier Name Description
GO:0003676 nucleic acid binding Interacting selectively and non-covalently with any nucleic acid.
GO:0000166 nucleotide binding Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
GO:0000398 mRNA splicing, via spliceosome The joining together of exons from one or more primary transcripts of messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
GO:0017069 snRNA binding Interacting selectively and non-covalently with a small nuclear RNA (snRNA).

26 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|pper:PRUPE_ppa010843mg 1 233 + 233 none 100.00 233 82.40 3e-137 hypothetical protein
blastp_kegg lcl|pmum:103333603 1 233 + 233 none 100.00 233 81.97 7e-137 U1 small nuclear ribonucleoprotein A-like
blastp_kegg lcl|cic:CICLE_v10022008mg 1 233 + 233 Gaps:1 100.00 232 83.62 3e-136 hypothetical protein
blastp_kegg lcl|cit:102629353 1 233 + 233 Gaps:1 100.00 232 83.62 3e-136 U1 small nuclear ribonucleoprotein A-like
blastp_kegg lcl|pxb:103943385 1 233 + 233 none 100.00 233 80.69 6e-136 protein MATERNALLY EXPRESSED GENE 5-like
blastp_kegg lcl|mdm:103406591 1 233 + 233 none 100.00 233 80.26 2e-135 uncharacterized LOC103406591
blastp_kegg lcl|tcc:TCM_015464 1 233 + 233 none 100.00 233 80.26 9e-134 RNA-binding family protein isoform 1
blastp_kegg lcl|mdm:103439918 1 233 + 233 none 100.00 233 80.26 9e-134 uncharacterized LOC103439918
blastp_kegg lcl|pxb:103951620 1 233 + 233 none 100.00 233 79.83 6e-133 uncharacterized LOC103951620
blastp_kegg lcl|rcu:RCOM_1663450 1 233 + 233 Gaps:1 100.00 232 81.03 1e-132 nucleic acid binding protein putative
blastp_pdb 2u1a_A 129 219 + 91 Gaps:14 87.50 88 38.96 3e-06 mol:protein length:88 U1 SMALL NUCLEAR RIBONUCLEOPROTEIN A
blastp_pdb 3pgw_P 104 219 + 116 Gaps:18 36.88 282 35.58 5e-06 mol:protein length:282 U1-A
blastp_pdb 3pgw_A 104 219 + 116 Gaps:18 36.88 282 35.58 5e-06 mol:protein length:282 U1-A
blastp_uniprot_sprot sp|Q9W6I1|RBPMS_CHICK 135 219 + 85 Gaps:9 38.00 200 48.68 9e-09 RNA-binding protein with multiple splicing OS Gallus gallus GN RBPMS PE 2 SV 1
blastp_uniprot_sprot sp|Q8VC52|RBPS2_MOUSE 135 219 + 85 Gaps:9 36.89 206 50.00 1e-08 RNA-binding protein with multiple splicing 2 OS Mus musculus GN Rbpms2 PE 1 SV 1
blastp_uniprot_sprot sp|Q9WVB0|RBPMS_MOUSE 124 219 + 96 Gaps:9 44.16 197 44.83 3e-08 RNA-binding protein with multiple splicing OS Mus musculus GN Rbpms PE 2 SV 2
blastp_uniprot_sprot sp|Q9YGP5|RBPMS_XENLA 135 219 + 85 Gaps:9 38.78 196 47.37 3e-08 RNA-binding protein with multiple splicing OS Xenopus laevis GN rbpms PE 2 SV 1
blastp_uniprot_sprot sp|Q6ZRY4|RBPS2_HUMAN 135 219 + 85 Gaps:9 36.36 209 48.68 3e-08 RNA-binding protein with multiple splicing 2 OS Homo sapiens GN RBPMS2 PE 1 SV 1
blastp_uniprot_sprot sp|Q93062|RBPMS_HUMAN 135 219 + 85 Gaps:9 38.78 196 47.37 4e-08 RNA-binding protein with multiple splicing OS Homo sapiens GN RBPMS PE 1 SV 1
blastp_uniprot_sprot sp|Q10MR0|RU2B_ORYSJ 108 207 + 100 Gaps:15 40.95 232 30.53 2e-06 U2 small nuclear ribonucleoprotein B'' OS Oryza sativa subsp. japonica GN Os03g0298800 PE 2 SV 1
blastp_uniprot_sprot sp|B8AM21|RU2B_ORYSI 108 207 + 100 Gaps:15 40.95 232 30.53 2e-06 U2 small nuclear ribonucleoprotein B'' OS Oryza sativa subsp. indica GN OsI_11177 PE 3 SV 1
blastp_uniprot_sprot sp|Q39244|RU1A_ARATH 118 207 + 90 Gaps:10 32.00 250 35.00 4e-06 U1 small nuclear ribonucleoprotein A OS Arabidopsis thaliana GN U1A PE 1 SV 1
rpsblast_cdd gnl|CDD|100104 135 206 + 72 Gaps:4 91.89 74 32.35 2e-10 cd00590 RRM RRM (RNA recognition motif) also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain) is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing RNA export and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs) proteins implicated in regulation of alternative splicing and protein components of small nuclear ribonucleoproteins (snRNPs)..
rpsblast_cdd gnl|CDD|200980 136 206 + 71 Gaps:4 95.71 70 31.34 8e-10 pfam00076 RRM_1 RNA recognition motif. (a.k.a. RRM RBD or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins including various hnRNP proteins proteins implicated in regulation of alternative splicing and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE) an autoimmune disease.
rpsblast_cdd gnl|CDD|197681 135 206 + 72 Gaps:3 94.52 73 37.68 2e-09 smart00360 RRM RNA recognition motif.
rpsblast_kog gnl|CDD|36670 130 219 + 90 Gaps:4 30.28 284 36.05 5e-09 KOG1457 KOG1457 KOG1457 RNA binding protein (contains RRM repeats) [General function prediction only].

7 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
PANTHER 42 220 179 PTHR10501:SF0 none none none
ProSiteProfiles 134 220 87 PS50102 none Eukaryotic RNA Recognition Motif (RRM) profile. IPR000504
SMART 135 212 78 SM00360 none RNA recognition motif IPR000504
Pfam 136 206 71 PF00076 none RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) IPR000504
PANTHER 42 220 179 PTHR10501 none none IPR024888
Gene3D 127 219 93 G3DSA:3.30.70.330 none none IPR012677
SUPERFAMILY 119 228 110 SSF54928 none none none

0 Localization

6 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2014_nSecLBD_3P Qrob_Chr08 8 s_1BN2OD_551 s_1B5AYF_599 17,17 0 43,51 lod 1,9229 4,4
Bourran2_2014_nLBD*_3P Qrob_Chr08 8 v_5216_549 v_11837_70 12,25 0 35,55 lod 2,5951 6
Bourran2_2014_nP*_3P Qrob_Chr08 8 v_5216_549 v_11837_70 12,19 0 31,97 lod 2,8472 6
Bourran2_2014_nPriLBD_3P Qrob_Chr08 8 v_5216_549 v_11837_70 12,36 0 30,43 lod 2,5806 5,1
Bourran2_2014_nEpis*_3P Qrob_Chr08 8 s_1DA4QW_688 s_1DNI7D_820 17,96 0 37,75 lod 2,9745 7,5
Bourran2_2014_nPriBD_3P Qrob_Chr11 11 v_11486_194 s_1AT3E_2335 5,54 0,4 20,6 lod 2,6345 5,9

0 Targeting