mRNA_H-elongata_contig5002.12224.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig5002.12224.1
Unique NamemRNA_H-elongata_contig5002.12224.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A699RE47_TANCI (Putative RNA-directed DNA polymerase (Fragment) n=2 Tax=Tanacetum cinerariifolium TaxID=118510 RepID=A0A699RE47_TANCI)

HSP 1 Score: 69.7 bits (169), Expect = 1.260e-13
Identity = 30/71 (42.25%), Postives = 47/71 (66.20%), Query Frame = 1
Query:    7 IPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            +PKG + V  RW    K N  G+V + K  +VA+GC+Q+YGV+Y + FA  +  ++V++V+ VA+ NGW L
Sbjct:   19 LPKGKHAVGSRWVFKTKFNSDGSVDRYKACLVAQGCTQQYGVDYKETFAPVAKMTTVRVVLSVAINNGWPL 89          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A6D2LPC9_9BRAS (Reverse transcriptase Ty1/copia-type domain-containing protein n=1 Tax=Microthlaspi erraticum TaxID=1685480 RepID=A0A6D2LPC9_9BRAS)

HSP 1 Score: 65.1 bits (157), Expect = 3.440e-11
Identity = 29/70 (41.43%), Postives = 46/70 (65.71%), Query Frame = 1
Query:   10 PKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            P+  NI+S +W    KTN +G+ +K K  +VARG SQEYGV+YL+ FA  S   ++++++ +A +  W L
Sbjct:   20 PEKKNIISVKWIYRIKTNANGDPIKHKARLVARGFSQEYGVDYLETFAPVSRHDTIRVILALAAQKKWRL 89          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: Q9LH44_ARATH (Copia-like retrotransposable element n=1 Tax=Arabidopsis thaliana TaxID=3702 RepID=Q9LH44_ARATH)

HSP 1 Score: 66.6 bits (161), Expect = 4.130e-11
Identity = 28/70 (40.00%), Postives = 45/70 (64.29%), Query Frame = 1
Query:   10 PKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            PK  N++S +W    KT+  G  +K K  +VARG +QEYGV+YL+ FA  S   +++ ++ +A + GW+L
Sbjct:  876 PKDKNVISVKWIFRLKTDASGEAIKRKARLVARGFTQEYGVDYLETFAPVSRYDTIRTIMAIAAQQGWKL 945          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A2K3MGT9_TRIPR (Copia-type polyprotein (Fragment) n=1 Tax=Trifolium pratense TaxID=57577 RepID=A0A2K3MGT9_TRIPR)

HSP 1 Score: 66.2 bits (160), Expect = 5.300e-11
Identity = 28/72 (38.89%), Postives = 46/72 (63.89%), Query Frame = 1
Query:    4 DIPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            D+P GA  +  +W    K NE+G V K K  +VA+G SQ+YGV+Y +VFA  +   ++++V+ +A + GW +
Sbjct:  293 DLPTGAKTIGLKWIFKTKLNENGEVEKYKARLVAKGYSQQYGVDYTEVFAPVARWDTIRMVIALAAQKGWNV 364          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A2K3LTN2_TRIPR (Reverse transcriptase Ty1/copia-type domain-containing protein (Fragment) n=1 Tax=Trifolium pratense TaxID=57577 RepID=A0A2K3LTN2_TRIPR)

HSP 1 Score: 66.2 bits (160), Expect = 5.500e-11
Identity = 28/72 (38.89%), Postives = 46/72 (63.89%), Query Frame = 1
Query:    4 DIPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            D+P GA  +  +W    K NE+G V K K  +VA+G SQ+YGV+Y +VFA  +   ++++V+ +A + GW +
Sbjct:  109 DLPTGAKTIGLKWIFKTKLNENGEVEKYKARLVAKGYSQQYGVDYTEVFAPVARWDTIRMVIALAAQKGWNV 180          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A5N5FQH8_9ROSA (Integrase catalytic domain-containing protein n=1 Tax=Pyrus ussuriensis x Pyrus communis TaxID=2448454 RepID=A0A5N5FQH8_9ROSA)

HSP 1 Score: 66.2 bits (160), Expect = 5.620e-11
Identity = 26/72 (36.11%), Postives = 48/72 (66.67%), Query Frame = 1
Query:    4 DIPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            ++P G+ ++  +W    K NE+G V K K  +VA+G SQ+YG++Y +VFA  +   ++++V+ +A + GWE+
Sbjct:  617 ELPTGSKVIGVKWVYKTKLNENGEVDKYKARLVAKGYSQKYGIDYDEVFAPVARLDTIRVVISMAAQKGWEI 688          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A6L2P044_TANCI (Copia-type polyprotein (Fragment) n=1 Tax=Tanacetum cinerariifolium TaxID=118510 RepID=A0A6L2P044_TANCI)

HSP 1 Score: 65.1 bits (157), Expect = 1.450e-10
Identity = 26/72 (36.11%), Postives = 45/72 (62.50%), Query Frame = 1
Query:    4 DIPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            D+PKG   +  +W    K NE G V K K  +VARG  QE+GV+Y++++A  +   +++L++ +A + GW +
Sbjct: 1368 DLPKGTKCIGVKWVFKTKLNEKGEVEKHKARLVARGYRQEFGVDYVEIYAPVARMDTIRLMIALAEQKGWNI 1439          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A392QXM0_9FABA (Potassium transporter 12 (Fragment) n=1 Tax=Trifolium medium TaxID=97028 RepID=A0A392QXM0_9FABA)

HSP 1 Score: 60.8 bits (146), Expect = 4.390e-10
Identity = 24/72 (33.33%), Postives = 44/72 (61.11%), Query Frame = 1
Query:    4 DIPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            D+P+G   +  +W    K NEHG + K K  +VA+G +Q++G+++ +VFA  S   +++ ++ VA   GW +
Sbjct:   18 DLPQGMKKIGVKWVYKTKYNEHGKIEKHKVRLVAKGYTQQHGIDFNEVFAPGSRWDTIRTILAVAASQGWNV 89          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A438CQH1_VITVI (Retrovirus-related Pol polyprotein from transposon RE1 n=1 Tax=Vitis vinifera TaxID=29760 RepID=A0A438CQH1_VITVI)

HSP 1 Score: 63.2 bits (152), Expect = 6.640e-10
Identity = 26/70 (37.14%), Postives = 44/70 (62.86%), Query Frame = 1
Query:    4 DIPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGW 213
            D+P G   +  +W    K NE+G V K K  +VA+G SQ+YGV+Y++VFA  +   ++++V+ +A +  W
Sbjct:   18 DLPSGGKTIGVKWIFKTKLNENGEVDKYKARLVAKGYSQQYGVDYVEVFAPVARLETIRIVISLAAQKDW 87          
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Match: A0A540MY60_MALBA (Integrase catalytic domain-containing protein n=1 Tax=Malus baccata TaxID=106549 RepID=A0A540MY60_MALBA)

HSP 1 Score: 63.2 bits (152), Expect = 6.770e-10
Identity = 25/72 (34.72%), Postives = 45/72 (62.50%), Query Frame = 1
Query:    4 DIPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVFAQKSLTSSVKLVVGVAVENGWEL 219
            D+P G   +  +W    K NE+G V K K  +VA+G SQ+YG+++ +VFA  +   ++++V+ +A +  WE+
Sbjct:  567 DLPPGGKTIGVKWVFKTKLNENGEVDKYKAWLVAKGYSQQYGIDFSEVFAPVARMDTIRMVISLAAQRSWEI 638          
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig5002.12224.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
A0A699RE47_TANCI1.260e-1342.25Putative RNA-directed DNA polymerase (Fragment) n=... [more]
A0A6D2LPC9_9BRAS3.440e-1141.43Reverse transcriptase Ty1/copia-type domain-contai... [more]
Q9LH44_ARATH4.130e-1140.00Copia-like retrotransposable element n=1 Tax=Arabi... [more]
A0A2K3MGT9_TRIPR5.300e-1138.89Copia-type polyprotein (Fragment) n=1 Tax=Trifoliu... [more]
A0A2K3LTN2_TRIPR5.500e-1138.89Reverse transcriptase Ty1/copia-type domain-contai... [more]
A0A5N5FQH8_9ROSA5.620e-1136.11Integrase catalytic domain-containing protein n=1 ... [more]
A0A6L2P044_TANCI1.450e-1036.11Copia-type polyprotein (Fragment) n=1 Tax=Tanacetu... [more]
A0A392QXM0_9FABA4.390e-1033.33Potassium transporter 12 (Fragment) n=1 Tax=Trifol... [more]
A0A438CQH1_VITVI6.640e-1037.14Retrovirus-related Pol polyprotein from transposon... [more]
A0A540MY60_MALBA6.770e-1034.72Integrase catalytic domain-containing protein n=1 ... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig5002contigH-elongata_contig5002:11410..11631 +
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
Hectar predicted targeting categoryother localisation
Exons1
Model size222
Cds size222
Stop1
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622930823.6123552-CDS-H-elongata_contig5002:11409..116311622930823.6123552-CDS-H-elongata_contig5002:11409..11631Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig5002 11410..11631 +
1691679585.9164214-CDS-H-elongata_contig5002:11409..116311691679585.9164214-CDS-H-elongata_contig5002:11409..11631Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig5002 11410..11631 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig5002.12224.1prot_H-elongata_contig5002.12224.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig5002 11410..11631 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig5002.12224.1

>prot_H-elongata_contig5002.12224.1 ID=prot_H-elongata_contig5002.12224.1|Name=mRNA_H-elongata_contig5002.12224.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=74bp
KDIPKGANIVSGRWGRSWKTNEHGNVLKPKPLMVARGCSQEYGVEYLKVF
AQKSLTSSVKLVVGVAVENGWEL*
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mRNA from alignment at H-elongata_contig5002:11410..11631+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig5002.12224.1 ID=mRNA_H-elongata_contig5002.12224.1|Name=mRNA_H-elongata_contig5002.12224.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=222bp|location=Sequence derived from alignment at H-elongata_contig5002:11410..11631+ (Himanthalia elongata Himel1 dioecious)
AAGGACATACCGAAGGGTGCCAATATTGTGTCTGGTCGGTGGGGTCGTTC TTGGAAAACGAATGAACATGGAAATGTTCTCAAACCCAAGCCGCTTATGG TCGCAAGAGGATGTAGTCAGGAATACGGCGTCGAATACTTAAAAGTCTTT GCACAAAAATCGTTGACGTCCAGTGTGAAACTTGTTGTTGGAGTCGCAGT AGAGAATGGTTGGGAGTTGTGA
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Coding sequence (CDS) from alignment at H-elongata_contig5002:11410..11631+

>mRNA_H-elongata_contig5002.12224.1 ID=mRNA_H-elongata_contig5002.12224.1|Name=mRNA_H-elongata_contig5002.12224.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=444bp|location=Sequence derived from alignment at H-elongata_contig5002:11410..11631+ (Himanthalia elongata Himel1 dioecious)
AAGGACATACCGAAGGGTGCCAATATTGTGTCTGGTCGGTGGGGTCGTTC
TTGGAAAACGAATGAACATGGAAATGTTCTCAAACCCAAGCCGCTTATGG
TCGCAAGAGGATGTAGTCAGGAATACGGCGTCGAATACTTAAAAGTCTTT
GCACAAAAATCGTTGACGTCCAGTGTGAAACTTGTTGTTGGAGTCGCAGT
AGAGAATGGTTGGGAGTTGTGAAAGGACATACCGAAGGGTGCCAATATTG
TGTCTGGTCGGTGGGGTCGTTCTTGGAAAACGAATGAACATGGAAATGTT
CTCAAACCCAAGCCGCTTATGGTCGCAAGAGGATGTAGTCAGGAATACGG
CGTCGAATACTTAAAAGTCTTTGCACAAAAATCGTTGACGTCCAGTGTGA
AACTTGTTGTTGGAGTCGCAGTAGAGAATGGTTGGGAGTTGTGA
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