Protein : Qrob_P0038890.2 Q. robur
Protein Identifier  ? Qrob_P0038890.2 Organism . Name  Quercus robur
Score  0.0 Score Type  egn
Protein Description  (M=3) K11095 - U1 small nuclear ribonucleoprotein C Gene Prediction Quality  validated
Protein length 

Sequence

Length: 196  
Kegg Orthology  K11095
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0 Synonyms

6 GO Terms

Identifier Name Description
GO:0008270 zinc ion binding Interacting selectively and non-covalently with zinc (Zn) ions.
GO:0003676 nucleic acid binding Interacting selectively and non-covalently with any nucleic acid.
GO:0005685 U1 snRNP A ribonucleoprotein complex that contains small nuclear RNA U1.
GO:0005634 nucleus A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
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:0000387 spliceosomal snRNP assembly The aggregation, arrangement and bonding together of one or more snRNA and multiple protein components to form a ribonucleoprotein complex that is involved in formation of the spliceosome.

28 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|tcc:TCM_043735 1 195 + 195 Gaps:13 100.00 208 65.87 1e-80 C2H2 and C2HC zinc fingers superfamily protein isoform 1
blastp_kegg lcl|pop:POPTR_0003s05710g 1 195 + 195 Gaps:19 100.00 202 70.79 4e-71 POPTRDRAFT_712203 proline-rich family protein
blastp_kegg lcl|cic:CICLE_v10022350mg 1 195 + 195 Gaps:24 100.00 197 68.53 6e-69 hypothetical protein
blastp_kegg lcl|cit:102624033 1 195 + 195 Gaps:24 100.00 197 68.53 6e-69 U1 small nuclear ribonucleoprotein C-like
blastp_kegg lcl|vvi:100263028 1 195 + 195 Gaps:20 100.00 213 62.91 6e-68 uncharacterized LOC100263028
blastp_kegg lcl|rcu:RCOM_0556840 1 195 + 195 Gaps:19 100.00 206 66.99 1e-67 U1 small nuclear ribonucleoprotein C putative
blastp_kegg lcl|pmum:103333851 1 195 + 195 Gaps:24 100.00 207 61.84 6e-64 U1 small nuclear ribonucleoprotein C
blastp_kegg lcl|gmx:100790892 1 195 + 195 Gaps:15 100.00 206 61.17 2e-63 U1 small nuclear ribonucleoprotein C-like
blastp_kegg lcl|cam:101505430 1 195 + 195 Gaps:21 100.00 200 59.00 2e-60 U1 small nuclear ribonucleoprotein C-like
blastp_kegg lcl|gmx:100795821 1 195 + 195 Gaps:15 100.00 206 63.11 5e-60 U1 small nuclear ribonucleoprotein C-like
blastp_pdb 3cw1_L 1 55 + 55 Gaps:4 76.62 77 54.24 5e-14 mol:protein length:77 U1 small nuclear ribonucleoprotein C
blastp_pdb 2vrd_A 1 55 + 55 Gaps:4 96.72 61 55.93 9e-16 mol:protein length:61 U1 SMALL NUCLEAR RIBONUCLEOPROTEIN C
blastp_pdb 3cw1_l 1 55 + 55 Gaps:4 76.62 77 54.24 5e-14 mol:protein length:77 U1 small nuclear ribonucleoprotein C
blastp_pdb 3cw1_0 1 55 + 55 Gaps:4 76.62 77 54.24 5e-14 mol:protein length:77 U1 small nuclear ribonucleoprotein C
blastp_pdb 3cw1_9 1 55 + 55 Gaps:4 76.62 77 54.24 5e-14 mol:protein length:77 U1 small nuclear ribonucleoprotein C
blastp_uniprot_sprot sp|F6HQ26|RU1C_VITVI 1 195 + 195 Gaps:20 100.00 213 62.91 2e-69 U1 small nuclear ribonucleoprotein C OS Vitis vinifera GN VIT_07s0104g01170 PE 3 SV 1
blastp_uniprot_sprot sp|Q56XE4|RU1C_ARATH 1 140 + 140 Gaps:26 66.67 207 60.87 6e-37 U1 small nuclear ribonucleoprotein C OS Arabidopsis thaliana GN At4g03120 PE 1 SV 1
blastp_uniprot_sprot sp|C5XYW4|RU1C2_SORBI 1 178 + 178 Gaps:47 88.16 228 53.73 2e-34 U1 small nuclear ribonucleoprotein C-2 OS Sorghum bicolor GN Sb04g028260 PE 3 SV 1
blastp_uniprot_sprot sp|C5XZK6|RU1C1_SORBI 1 178 + 178 Gaps:46 88.31 231 51.47 4e-34 U1 small nuclear ribonucleoprotein C-1 OS Sorghum bicolor GN Sb04g009880 PE 3 SV 1
blastp_uniprot_sprot sp|C3Z1P5|RU1C_BRAFL 1 130 + 130 Gaps:36 75.11 221 37.35 9e-16 U1 small nuclear ribonucleoprotein C OS Branchiostoma floridae GN BRAFLDRAFT_69314 PE 3 SV 1
blastp_uniprot_sprot sp|Q1RLC9|RU1C_CIOIN 1 61 + 61 Gaps:3 52.46 122 53.12 7e-15 U1 small nuclear ribonucleoprotein C OS Ciona intestinalis PE 2 SV 1
blastp_uniprot_sprot sp|Q8JGS0|RU1C_DANRE 1 55 + 55 Gaps:4 37.11 159 55.93 3e-14 U1 small nuclear ribonucleoprotein C OS Danio rerio GN snrpc PE 2 SV 1
blastp_uniprot_sprot sp|E3X5D6|RU1C_ANODA 1 102 + 102 Gaps:7 68.21 151 41.75 4e-14 U1 small nuclear ribonucleoprotein C OS Anopheles darlingi GN AND_14095 PE 3 SV 1
blastp_uniprot_sprot sp|F6TFD9|RU1C_MACMU 1 55 + 55 Gaps:4 37.11 159 55.93 6e-14 U1 small nuclear ribonucleoprotein C OS Macaca mulatta GN SNRPC PE 3 SV 1
blastp_uniprot_sprot sp|P09234|RU1C_HUMAN 1 55 + 55 Gaps:4 37.11 159 55.93 6e-14 U1 small nuclear ribonucleoprotein C OS Homo sapiens GN SNRPC PE 1 SV 1
rpsblast_cdd gnl|CDD|114912 1 33 + 33 none 86.84 38 75.76 2e-15 pfam06220 zf-U1 U1 zinc finger. This family consists of several U1 small nuclear ribonucleoprotein C (U1-C) proteins. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site (ss) at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' ss is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' ss. Binding of TIA-1 in the vicinity of a 5' ss helps to stabilise U1 snRNP recruitment at least in part via a direct interaction with U1-C thus providing one molecular mechanism for the function of this splicing regulator. This domain is probably a zinc-binding. It is found in multiple copies in some members of the family.
rpsblast_cdd gnl|CDD|34737 1 30 + 30 none 15.96 188 66.67 2e-07 COG5136 COG5136 U1 snRNP-specific protein C [RNA processing and modification].
rpsblast_kog gnl|CDD|38664 1 167 + 167 Gaps:31 95.76 165 35.44 1e-11 KOG3454 KOG3454 KOG3454 U1 snRNP-specific protein C [RNA processing and modification].

7 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
PANTHER 2 193 192 PTHR31148 none none IPR017340
SMART 1 37 37 SM00451 none U1-like zinc finger IPR003604
PIRSF 1 194 194 PIRSF037969 none none IPR017340
ProSiteProfiles 4 36 33 PS50171 none Zinc finger matrin-type profile. IPR000690
Pfam 1 34 34 PF06220 none U1 zinc finger IPR013085
SUPERFAMILY 1 38 38 SSF57667 none none none
PANTHER 2 193 192 PTHR31148:SF1 none none none

0 Localization

4 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_vSeqBC_3P Qrob_Chr10 10 s_1A6CK6_610 v_7092_29 4,28 0 23,27 lod 2,8619 7
Bourran2_2015_nEpis_3P Qrob_Chr12 12 s_1AOES6_1466 s_1B0DDG_1094 28,97 28,55 30,1 lod 3.6 8.4
Bourran2_2014_nFork*_3P Qrob_Chr06 6 v_12930_125 s_1AMZEI_909 34,28 7,43 41,48 lod 2,4044 5,5
Bourran1_2004_QTL4_peak_Bud_burst_3P Qrob_Chr04 4 s_1AHUWN_1101 s_1BRNG7_1618 30,55 0 47,55 lod 2,8 7,4

0 Targeting