mRNA_H-elongata_contig47242.11834.1 (mRNA) Himanthalia elongata Himel1 dioecious

You are viewing an mRNA, more information available on the corresponding polypeptide page

Overview
NamemRNA_H-elongata_contig47242.11834.1
Unique NamemRNA_H-elongata_contig47242.11834.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Match: A0A6H5KW60_9PHAE (HTH La-type RNA-binding domain-containing protein n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5KW60_9PHAE)

HSP 1 Score: 69.7 bits (169), Expect = 3.010e-12
Identity = 36/56 (64.29%), Postives = 43/56 (76.79%), Query Frame = 1 
Query:   10 GNPLVGFGPTGGEA---LIGTLCWQVEYYFSEENLVTDSYLRGLMDVDGYVAVSKV 168
            G  +VG G  GGEA   L+  L WQVEYYFS +NLVTD+YLRGLMD +G+VAVSK+
Sbjct: 1587 GANVVGGGSDGGEAFEALMAALRWQVEYYFSADNLVTDTYLRGLMDPEGFVAVSKI 1642
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BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Match: D7FJX9_ECTSI (HTH La-type RNA-binding domain-containing protein n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D7FJX9_ECTSI)

HSP 1 Score: 67.0 bits (162), Expect = 6.870e-12
Identity = 35/56 (62.50%), Postives = 42/56 (75.00%), Query Frame = 1 
Query:   10 GNPLVGFGPTGGEA---LIGTLCWQVEYYFSEENLVTDSYLRGLMDVDGYVAVSKV 168
            G  + G G  GGEA   L+  L WQVEYYFS +NLVTD+YLRGLMD +G+VAVSK+
Sbjct:   43 GANVGGGGSDGGEAFEALMAALRWQVEYYFSADNLVTDAYLRGLMDPEGFVAVSKI 98
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BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Match: A0A7S2G044_9STRA (Hypothetical protein n=1 Tax=Dictyocha speculum TaxID=35687 RepID=A0A7S2G044_9STRA)

HSP 1 Score: 52.4 bits (124), Expect = 3.570e-6
Identity = 22/43 (51.16%), Postives = 33/43 (76.74%), Query Frame = 1 
Query:   46 EALIGTLCWQVEYYFSEENLVTDSYLRGLMDVDGYVAVSKVRK 174
            + L+ +LC Q+EYYFS ENL+ D YLR  MD++GYV ++++ K
Sbjct:  211 DILLLSLCHQIEYYFSAENLIRDVYLRSKMDMNGYVLLTEIAK 253
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BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Match: UPI001C4EFCC7 (la-related protein 1C-like isoform X1 n=2 Tax=Macadamia integrifolia TaxID=60698 RepID=UPI001C4EFCC7)

HSP 1 Score: 50.1 bits (118), Expect = 2.450e-5
Identity = 24/49 (48.98%), Postives = 34/49 (69.39%), Query Frame = 1 
Query:   13 NPLVGFGPTGGEALIGTLCWQVEYYFSEENLVTDSYLRGLMDVDGYVAV 159
            NP VG        L  T+ +Q+EYYFS+ENLV D+YL+ LMD +G+V++
Sbjct:  355 NPEVG--------LCNTILYQIEYYFSKENLVKDAYLKSLMDNEGWVSI 395
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BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Match: UPI00053A0E1E (la-related protein 1C n=3 Tax=Camelina sativa TaxID=90675 RepID=UPI00053A0E1E)

HSP 1 Score: 49.3 bits (116), Expect = 4.600e-5
Identity = 23/46 (50.00%), Postives = 33/46 (71.74%), Query Frame = 1 
Query:   73 QVEYYFSEENLVTDSYLRGLMDVDGYVAV------SKVRKLWNALQ 192
            Q++YYFSEENL+TD YLRG MD +G+V +       KV +L +++Q
Sbjct:  386 QIQYYFSEENLITDLYLRGFMDEEGFVPLRVIAGFKKVAELTDSIQ 431
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BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Match: A0A6J1BZT7_MOMCH (la-related protein 1C-like n=1 Tax=Momordica charantia TaxID=3673 RepID=A0A6J1BZT7_MOMCH)

HSP 1 Score: 48.5 bits (114), Expect = 8.620e-5
Identity = 23/54 (42.59%), Postives = 37/54 (68.52%), Query Frame = 1 
Query:   49 ALIGTLCWQVEYYFSEENLVTDSYLRGLMDVDGYVAVS------KVRKLWNALQ 192
            +L  ++  Q+EYYFS++NL+TD++LR  MD  G+V +S      +V+KL N +Q
Sbjct:  379 SLSASIVQQIEYYFSDDNLITDTFLRSWMDDQGWVPISLIAAFPRVKKLTNNIQ 432
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BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Match: A0A830CGF4_9LAMI (La-related protein 1a n=1 Tax=Phtheirospermum japonicum TaxID=374723 RepID=A0A830CGF4_9LAMI)

HSP 1 Score: 48.5 bits (114), Expect = 8.690e-5
Identity = 27/69 (39.13%), Postives = 39/69 (56.52%), Query Frame = 1 
Query:   13 NPLVGFGPTGGEALIGTLCWQVEYYFSEENLVTDSYLRGLMDVDGYVAVSKVR--KLWNALQPPRPFVL 213
            +P V   P+   AL   +  Q+EYYFS++NL TD YLR LMD  G++ +S +   K    +    PF+L
Sbjct:   78 SPGVHMPPSPMLALRANIVKQIEYYFSDQNLETDPYLRSLMDSQGWIPISTIADFKRVKRMNADIPFIL 146
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BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Match: A0A4D9AIX5_SALSN (La-related protein 1 n=6 Tax=Salvia TaxID=21880 RepID=A0A4D9AIX5_SALSN)

HSP 1 Score: 48.5 bits (114), Expect = 8.780e-5
Identity = 28/55 (50.91%), Postives = 36/55 (65.45%), Query Frame = 1 
Query:   13 NPLVGFGPTGGEALIGTLCWQVEYYFSEENLVTDS-YLRGLMDVDGYVAVSKVRK 174
            +P V   PT  EAL  ++  Q+EYYFS+ENLV+D  YL  LMD  G+V VS + K
Sbjct:  294 SPGVPISPTPLEALRTSIVKQIEYYFSDENLVSDDVYLISLMDHHGWVPVSSIAK 348
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig47242.11834.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 8
Match NameE-valueIdentityDescription
A0A6H5KW60_9PHAE3.010e-1264.29HTH La-type RNA-binding domain-containing protein ... [more]
D7FJX9_ECTSI6.870e-1262.50HTH La-type RNA-binding domain-containing protein ... [more]
A0A7S2G044_9STRA3.570e-651.16Hypothetical protein n=1 Tax=Dictyocha speculum Ta... [more]
UPI001C4EFCC72.450e-548.98la-related protein 1C-like isoform X1 n=2 Tax=Maca... [more]
UPI00053A0E1E4.600e-550.00la-related protein 1C n=3 Tax=Camelina sativa TaxI... [more]
A0A6J1BZT7_MOMCH8.620e-542.59la-related protein 1C-like n=1 Tax=Momordica chara... [more]
A0A830CGF4_9LAMI8.690e-539.13La-related protein 1a n=1 Tax=Phtheirospermum japo... [more]
A0A4D9AIX5_SALSN8.780e-550.91La-related protein 1 n=6 Tax=Salvia TaxID=21880 Re... [more]
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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig47242contigH-elongata_contig47242:4066..4278 +
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 vs UniRef902022-09-19
OGS1.0 of Himanthalia elongata Himel1 dioecious2021-02-24
Properties
Property NameValue
Taxonomic scopeEukaryota
Seed ortholog score68.6
Seed ortholog evalue1.4e-09
Seed eggNOG ortholog2880.D7FJX9
Preferred nameLARP4
KEGG koko:K18757,ko:K18763
GOsGO:0003674,GO:0003676,GO:0003723,GO:0003727,GO:0005488,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006417,GO:0006996,GO:0007010,GO:0008143,GO:0008150,GO:0009889,GO:0009891,GO:0009893,GO:0009987,GO:0010468,GO:0010556,GO:0010557,GO:0010604,GO:0010608,GO:0010628,GO:0016043,GO:0019222,GO:0022603,GO:0022604,GO:0031323,GO:0031325,GO:0031326,GO:0031328,GO:0032268,GO:0032270,GO:0034248,GO:0034250,GO:0044424,GO:0044444,GO:0044464,GO:0045727,GO:0048518,GO:0048522,GO:0050789,GO:0050793,GO:0050794,GO:0051128,GO:0051171,GO:0051173,GO:0051246,GO:0051247,GO:0060255,GO:0065007,GO:0070717,GO:0071840,GO:0080090,GO:0097159,GO:1901363,GO:2000112
EggNOG free text desc.La ribonucleoprotein domain family member
EggNOG OGsCOG5193@1,KOG2590@2759
COG Functional cat.JO
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko03019
Hectar predicted targeting categoryother localisation
Exons1
Model size213
Cds size213
Stop0
Start1
Relationships

The following CDS feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesTypePosition
1622930779.816803-CDS-H-elongata_contig47242:4065..42781622930779.816803-CDS-H-elongata_contig47242:4065..4278Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig47242 4066..4278 +
1691679566.7597601-CDS-H-elongata_contig47242:4065..42781691679566.7597601-CDS-H-elongata_contig47242:4065..4278Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig47242 4066..4278 +


The following polypeptide feature(s) derives from this mRNA:

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig47242.11834.1prot_H-elongata_contig47242.11834.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig47242 4066..4278 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig47242.11834.1

>prot_H-elongata_contig47242.11834.1 ID=prot_H-elongata_contig47242.11834.1|Name=mRNA_H-elongata_contig47242.11834.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=71bp
MYGGNPLVGFGPTGGEALIGTLCWQVEYYFSEENLVTDSYLRGLMDVDGY
VAVSKVRKLWNALQPPRPFVL
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mRNA from alignment at H-elongata_contig47242:4066..4278+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig47242.11834.1 ID=mRNA_H-elongata_contig47242.11834.1|Name=mRNA_H-elongata_contig47242.11834.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=213bp|location=Sequence derived from alignment at H-elongata_contig47242:4066..4278+ (Himanthalia elongata Himel1 dioecious)
ATGTACGGGGGGAATCCACTGGTAGGATTCGGCCCGACGGGTGGCGAAGC
CCTGATTGGAACCCTCTGCTGGCAGGTGGAATACTATTTTTCAGAGGAGA
ACCTCGTAACGGATTCTTACCTCCGCGGGCTGATGGACGTCGACGGATAC
GTGGCGGTGTCCAAGGTGCGAAAATTGTGGAATGCGTTGCAACCTCCCCG
CCCCTTCGTGTTG
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Coding sequence (CDS) from alignment at H-elongata_contig47242:4066..4278+

>mRNA_H-elongata_contig47242.11834.1 ID=mRNA_H-elongata_contig47242.11834.1|Name=mRNA_H-elongata_contig47242.11834.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=426bp|location=Sequence derived from alignment at H-elongata_contig47242:4066..4278+ (Himanthalia elongata Himel1 dioecious)
ATGTACGGGGGGAATCCACTGGTAGGATTCGGCCCGACGGGTGGCGAAGC
CCTGATTGGAACCCTCTGCTGGCAGGTGGAATACTATTTTTCAGAGGAGA
ACCTCGTAACGGATTCTTACCTCCGCGGGCTGATGGACGTCGACGGATAC
GTGGCGGTGTCCAAGGTGCGAAAATTGTGGAATGCGTTGCAACCTCCCCG
CCCCTTCGTGTTGATGTACGGGGGGAATCCACTGGTAGGATTCGGCCCGA
CGGGTGGCGAAGCCCTGATTGGAACCCTCTGCTGGCAGGTGGAATACTAT
TTTTCAGAGGAGAACCTCGTAACGGATTCTTACCTCCGCGGGCTGATGGA
CGTCGACGGATACGTGGCGGTGTCCAAGGTGCGAAAATTGTGGAATGCGT
TGCAACCTCCCCGCCCCTTCGTGTTG
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