Protein : Qrob_P0685100.2 Q. robur
Protein Identifier  ? Qrob_P0685100.2 Organism . Name  Quercus robur
Score  97.0 Score Type  egn
Protein Description  (M=2) PTHR10501:SF0 - SMALL NUCLEAR RIBONUCLEOPROTEIN Gene Prediction Quality  validated
Protein length 

Sequence

Length: 232  
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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).

23 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|tcc:TCM_035511 7 231 + 225 Gaps:3 85.82 261 75.45 6e-113 Nucleotide binding nucleic acid binding
blastp_kegg lcl|pper:PRUPE_ppa010374mg 7 231 + 225 Gaps:1 89.68 252 70.80 4e-106 hypothetical protein
blastp_kegg lcl|cmo:103485638 7 231 + 225 Gaps:8 89.88 257 71.00 5e-105 uncharacterized LOC103485638
blastp_kegg lcl|pmum:103341849 7 231 + 225 Gaps:1 89.68 252 69.91 1e-104 U1 small nuclear ribonucleoprotein A
blastp_kegg lcl|pvu:PHAVU_007G078500g 8 231 + 224 Gaps:4 100.00 224 71.43 5e-103 hypothetical protein
blastp_kegg lcl|mdm:103402165 16 231 + 216 Gaps:2 87.80 246 71.30 1e-101 uncharacterized LOC103402165
blastp_kegg lcl|pxb:103957982 16 231 + 216 Gaps:2 86.75 249 71.30 2e-101 uncharacterized LOC103957982
blastp_kegg lcl|cam:101512502 7 228 + 222 Gaps:5 77.94 281 71.69 7e-101 uncharacterized LOC101512502
blastp_kegg lcl|csv:101222348 7 231 + 225 Gaps:8 89.88 257 71.00 2e-100 uncharacterized LOC101222348
blastp_kegg lcl|cam:101500740 7 231 + 225 Gaps:6 89.47 247 71.04 2e-99 uncharacterized LOC101500740
blastp_pdb 2u1a_A 127 217 + 91 Gaps:14 87.50 88 37.66 3e-07 mol:protein length:88 U1 SMALL NUCLEAR RIBONUCLEOPROTEIN A
blastp_pdb 3pgw_P 127 217 + 91 Gaps:14 27.30 282 37.66 2e-06 mol:protein length:282 U1-A
blastp_pdb 3pgw_A 127 217 + 91 Gaps:14 27.30 282 37.66 2e-06 mol:protein length:282 U1-A
blastp_uniprot_sprot sp|Q9YGP5|RBPMS_XENLA 133 217 + 85 Gaps:13 38.78 196 44.74 7e-08 RNA-binding protein with multiple splicing OS Xenopus laevis GN rbpms PE 2 SV 1
blastp_uniprot_sprot sp|Q9W6I1|RBPMS_CHICK 133 217 + 85 Gaps:13 38.00 200 43.42 4e-07 RNA-binding protein with multiple splicing OS Gallus gallus GN RBPMS PE 2 SV 1
blastp_uniprot_sprot sp|Q8VC52|RBPS2_MOUSE 133 217 + 85 Gaps:13 36.89 206 42.11 2e-06 RNA-binding protein with multiple splicing 2 OS Mus musculus GN Rbpms2 PE 1 SV 1
blastp_uniprot_sprot sp|Q93062|RBPMS_HUMAN 133 217 + 85 Gaps:13 38.78 196 42.11 5e-06 RNA-binding protein with multiple splicing OS Homo sapiens GN RBPMS PE 1 SV 1
blastp_uniprot_sprot sp|Q9WVB0|RBPMS_MOUSE 133 217 + 85 Gaps:13 38.58 197 42.11 6e-06 RNA-binding protein with multiple splicing OS Mus musculus GN Rbpms PE 2 SV 2
blastp_uniprot_sprot sp|Q6ZRY4|RBPS2_HUMAN 133 217 + 85 Gaps:13 36.36 209 40.79 6e-06 RNA-binding protein with multiple splicing 2 OS Homo sapiens GN RBPMS2 PE 1 SV 1
rpsblast_cdd gnl|CDD|100104 133 204 + 72 Gaps:6 91.89 74 33.82 1e-09 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|197681 133 202 + 70 Gaps:7 91.78 73 37.31 6e-09 smart00360 RRM RNA recognition motif.
rpsblast_cdd gnl|CDD|200980 134 202 + 69 Gaps:4 92.86 70 30.77 1e-07 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_kog gnl|CDD|36670 128 217 + 90 Gaps:4 30.28 284 33.72 6e-08 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 22 218 197 PTHR10501:SF0 none none none
ProSiteProfiles 132 218 87 PS50102 none Eukaryotic RNA Recognition Motif (RRM) profile. IPR000504
SMART 133 209 77 SM00360 none RNA recognition motif IPR000504
PANTHER 22 218 197 PTHR10501 none none IPR024888
SUPERFAMILY 100 227 128 SSF54928 none none none
Pfam 134 203 70 PF00076 none RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) IPR000504
Gene3D 122 217 96 G3DSA:3.30.70.330 none none IPR012677

0 Localization

19 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran1_2003_QTL2_peak_Bud_burst_A4 Qrob_Chr02 2 s_1B0H8U_259 s_1CB1VL_554 17 0 87 lod 3,3 8,7
Bourran2_2004_QTL9_peak_Bud_burst_3P Qrob_Chr02 2 s_1C34E9_788 v_12238_322 50 25 75 lod 4,4 10,1
NancyGreenhouseCO2_2001_ambient_elevated_leaf_cellulose_QTL2_d13Cf Qrob_Chr02 2 s_1AQA4Z_1644 s_1AK5QX_947 53.67 14,01 79,68 lod 5.6594 0.03
Bourran1_2004_QTL2_peak_Bud_burst_3P Qrob_Chr02 2 s_1AW12F_382 s_1A77MR_223 42 6 64 lod 3,6 9,6
Bourran2_2002_QTL7_peak_Bud_burst_3P Qrob_Chr02 2 s_1ANG6_1446 v_11270_161 40 29 52 lod 8,1 16
Bourran2_2002_QTL9_peak_Bud_burst_A4 Qrob_Chr02 2 s_1BFNDA_375 s_1A3VA1_2139 32,5 17 62 lod 3,1 4,2
Bourran2_2003_QTL8_peak_Bud_burst_3P Qrob_Chr02 2 s_1ANG6_1446 v_11270_161 40 0 72 lod 4,4 9,9
Bourran2_2014_nP_A4 Qrob_Chr11 11 s_1B58GB_1413 s_1A5BYY_1671 11,15 0 42,38 lod 1,8913 4,5
Bourran2_2015_nP_A4 Qrob_Chr02 2 s_1A0FUE_1868 s_1A1UAI_500 20,64 20,47 21,36 lod 5.8 10.9
Bourran2_2015_nPriLBD_A4 Qrob_Chr02 2 s_1CP5DI_1183 s_1A63ZX_1277 24,87 24,63 26,18 lod 3.8 7
NancyGreenhouseCO2_2001_ambient_elevated_leaf_cellulose_QTL6_d13Cf Qrob_Chr02 2 s_1AEP21_172 v_6048_204 46.33 22,5 65,23 lod 4.972 0.03
Bourran2_2015_nEpis_A4 Qrob_Chr09 9 v_15847_485 v_8329_369 34,94 34,88 37,45 lod 3.1 7
Bourran2_2015_nSecLBD_A4 Qrob_Chr09 9 v_15847_485 v_8329_369 35,81 34,88 37,45 lod 4.4 10.4
Bourran1_2003_QTL1_peak_Bud_burst_3P Qrob_Chr02 2 s_1AR8KI_1183 s_1B0QB1_473 22 6 41 lod 4,2 11,5
Bourran1_2004_QTL3_peak_Bud_burst_A4 Qrob_Chr02 2 s_1B0H8U_259 s_1CB1VL_554 17 0 46 lod 2,9 6,4
Bourran2_2015_nEpiBC_A4 Qrob_Chr07 7 s_1DP9TW_798 v_8128_173 22,61 22,14 22,73 lod 3.1 8.5
Champenoux_2015_nEpis_A4 Qrob_Chr02 2 s_1BAGIZ_823 s_1BN4CB_644 23,06 23,06 23,06 lod 4.9 11
Champenoux_2015_nP_A4 Qrob_Chr02 2 s_1BN4CB_644 v_508_128 23,76 23,06 24,51 lod 2.8 6.2
Champenoux_2015_nPriLBD_A4 Qrob_Chr02 2 s_1CP5DI_1183 s_1A63ZX_1277 25,35 24,63 26,18 lod 4.0 8.7

0 Targeting