NO28G00560.1, NO28G00560.1 (mRNA) Nannochloropsis oceanica | NanDeSyn: Nannochloropsis Design & Synthesis Initiative

Overview


Name	NO28G00560.1
Unique Name	NO28G00560.1
Type	mRNA
Organism	Nannochloropsis oceanica (N. oceanica IMET1)
Sequence length	2122
Alignment location	chr28:198798..201529 -

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Properties

Mutants

Expression

No biomaterial libraries express this feature.

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
chr28	genome	chr28:198798..201529 -

Analyses

This mRNA is derived from or has results from the following analyses


Analysis Name	Date Performed
Gene prediction for N. oceanica IMET1	2017-10-24
Homology annotation for N. oceanica IMET1	2017-10-25
InterPro analysis for N. oceanica IMET1	2017-10-25

Annotated Terms

Homology

[Close]

BLAST of NO28G00560.1 vs.
Match: XP_005854915.1 (type ii alternative rna polymerase sigma sigma-70 family protein [Nannochloropsis gaditana CCMP526]; EKU21444.1 type ii alternative rna polymerase sigma sigma-70 family protein [Nannochloropsis gaditana CCMP526])

HSP 1 Score: 381.3 bits (978), Expect = 3.900e-102
Identity = 201/258 (77.91%), Postives = 219/258 (84.88%), Query Frame = 0

Query:  140 NPPGADGTVRTSTSIHLPAEQQLELARCVKSWVACKETKKEREEMIGRPLSFEEWAVAVGMEEKTLRRQIEDGKAARELLIKTNINLIKSMAVRLYARQEKNENRLSVDDLVLEGTQGILKAAAKFDPTRNIRFTTYAVWWIRQAISLAIQTHSNTVRLPVLLQARIKKIKEARLRLYLLLEREPTHEEVGKEIGLPAGKVESIRRKGGRGRLVGAEEEWVVVGMAMGNGMDGEEGREEGVQQQAGEGGWGWSKGERG 398
            NPPGADG+V+TSTSIHLPAEQQLELARCVKSW+ CK  K E E  +GRP++F EWA A+G+EE  LRRQI DGKAARELL+KTNINL+KSMAVRL+  QEKNENRLSVDDL+LEGTQGILKAAAKFDPTRN+RF+TYAVWWIRQAISLAIQTHSNTVRLPVLLQ RIKKIK ARLRLYL LEREPTHEEVG+E+GLPAGKVE IRRK  RGRLVG EEEWVV GM +     G EG EE  QQQ G GG    +GE G
Sbjct:   15 NPPGADGSVKTSTSIHLPAEQQLELARCVKSWLTCKAVKAEEESTLGRPIAFSEWARALGVEESALRRQIADGKAARELLVKTNINLVKSMAVRLHQSQEKNENRLSVDDLILEGTQGILKAAAKFDPTRNVRFSTYAVWWIRQAISLAIQTHSNTVRLPVLLQTRIKKIKAARLRLYLQLEREPTHEEVGREVGLPAGKVERIRRKTARGRLVGEEEEWVVAGMTVA----GTEGPEE-EQQQRGTGGIEGREGEAG 267

The following BLAST results are available for this feature:

BLAST of NO28G00560.1 vs.

BLAST of NO28G00560.1 vs.
Analysis Date: 2017-10-25 (Homology annotation for N. oceanica IMET1)
Total hits: 1


Match Name	E-value	Identity	Description
XP_005854915.1	3.900e-102	77.91	type ii alternative rna polymerase sigma sigma-70 ...	[more]

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Species	Type
NO28G00560	NO28G00560	Nannochloropsis oceanica (N. oceanica IMET1)	gene

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


Feature Name	Unique Name	Species	Type
NO28G00560.1	NO28G00560.1-protein	Nannochloropsis oceanica (N. oceanica IMET1)	polypeptide

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


Feature Name	Unique Name	Species	Type
NO28G00560.1.cds1	NO28G00560.1.cds1	Nannochloropsis oceanica (N. oceanica IMET1)	CDS
NO28G00560.1.cds2	NO28G00560.1.cds2	Nannochloropsis oceanica (N. oceanica IMET1)	CDS
NO28G00560.1.cds3	NO28G00560.1.cds3	Nannochloropsis oceanica (N. oceanica IMET1)	CDS
NO28G00560.1.cds4	NO28G00560.1.cds4	Nannochloropsis oceanica (N. oceanica IMET1)	CDS

Sequences

The following sequences are available for this feature:

mRNA sequence
protein sequence
mRNA from alignment at chr28:198798..201529-
coding sequence from alignment at chr28:198798..201529-

mRNA sequence

>NO28G00560.1 ID=NO28G00560.1|Name=NO28G00560.1|organism=Nannochloropsis oceanica|type=mRNA|length=2122bp
GCCTGCATAGACGTGAAACAGAGACAGGCGACTGGACGGCACCAAATAAA
TTACTGGACAGCAAACAATATGTTGAGCTGACATGCCGAGGATAAAGTGC
AGCGCTCCACACGACGGTGAGAGCACGCTTGATGCGTCAGGTTTTGATCA
AGGAGTATGAAGACAGTGTCGATTCATCCCACGGGATGTTCCAATTAATC
GTTCCAAGTTTGTCGATGCTGTGTCTCTTCCTTTTATTCGCTCCACTTTG
CTTTGAAGAACGCTTTGCTTATCTCTGTCAAGCCTACCCGGAGGTTATAC
CGTGACCGTGACTGCTGACTCGGAAAAGAGAGGTGCGTGTGTCGGTCTGA
TGCGGTGTTCCTGATACTTGCTTTGGGCATACGGCGCCTTTTTAATGCTC
ATTTCCGGGCATTTTCCGGTGGCTCTGGGTACGAATCTGGCAGTACTAGG
CGAGAGTATGAGCAATATCGTGGCTCGCCCTCGGCAACATCCCAACCATC
AATTAACCCTCAGCAGATCTAGAAGACTCCCGGGCTTGGACCACTCGCTG
ACCACGCCGATCATGATCAGCATGCGTGCTTGCGCGTGTGCCCTTTGGCC
AACCCCTTTTCCACTGCACTGTCCTTGGCGTGTCTTGTGCCGCGCTCTCA
CTCAAGTCACTCTCTTTCTCATAATCCTCCCACAATCATAAAAACAAACA
GCAGCAACGTCACGCGGGACACGAAAACAGCACACACTAACCCAGCCTGC
CCCTGGACATACCCCGTAAAAGTATTTCTGCACCGCCCACACCACCACCA
GCAGCAACAGAGACTGCATAAGACTGGCACTCAGGATGCGACGTCCATTA
CTCGCCAGCCAGCCCTTGGCATTTTTTCCCGTCTCCCTCGCCCTCCTCCT
ACTCGCCCTCCCCAATCACGGTACACGCGCCTTCCAATTATGTCCGACGT
CCTGTACAAGTAACAGGCTCATCTCCTCCCCTCCCTCCTCATCCAGTTGT
AGTAGCAGTAGCAGCAGCAGCAGCAGCAGTCGGAGAATAACACAACCACA
ACAAAAGCCAAGACAAGAACAAGGTCGTTTCTCCAAACTCTTTCAAATGA
GCACTCTCACCAGCAATAGCAACAGCAGAAGAAGAAGCAGCAGCAGCAGC
AGCAGCAGCAGGGGCTACGCCGAACGCGGCGGTACGAATGGGAGCCGTCG
TCGCACCCCCAGCAACACACTTAATAGCAATTTGAAAGCTTTTCCTTCAG
AGAATCCACCGGGAGCCGACGGAACTGTCAGAACAAGCACATCGATCCAC
TTGCCTGCAGAGCAACAATTGGAACTGGCCCGATGCGTCAAGTCGTGGGT
AGCGTGCAAGGAGACGAAAAAAGAACGAGAAGAAATGATCGGGAGACCGT
TGTCTTTTGAAGAGTGGGCCGTGGCCGTTGGAATGGAGGAAAAGACGCTG
CGAAGACAGATCGAAGACGGGAAGGCGGCGAGGGAGCTGCTGATCAAGAC
GAACATTAACTTGATCAAGTCCATGGCAGTGCGATTGTACGCCCGCCAGG
AGAAGAACGAGAACAGGCTCAGCGTGGATGATCTGGTGCTCGAGGGGACT
CAAGGCATTTTGAAAGCAGCGGCCAAATTCGATCCTACCCGGAACATCCG
CTTCACGACCTACGCCGTGTGGTGGATCCGTCAGGCCATCTCCCTGGCCA
TCCAGACGCACAGCAACACCGTCCGCCTCCCCGTTCTCCTCCAAGCACGC
ATAAAGAAAATAAAGGAAGCTCGTCTGCGCCTTTACCTCTTGCTGGAGCG
GGAGCCCACGCATGAAGAGGTGGGGAAGGAAATCGGTCTGCCGGCAGGGA
AGGTAGAATCGATCAGGAGGAAGGGGGGGAGGGGCCGTCTGGTGGGCGCA
GAAGAGGAATGGGTGGTCGTGGGCATGGCGATGGGCAACGGCATGGACGG
GGAAGAAGGAAGGGAGGAAGGTGTCCAACAGCAGGCGGGAGAGGGGGGAT
GGGGATGGTCGAAGGGGGAGAGGGGCCGTTGGTGGTGGATGGAAAGGGTG
GAGAGACTGAGGGAGGGAGGGAGGAACGACGGAAACTTGAGGCGTTTAAG
AAATCGGTGGTGTTGCGTTTGA

protein sequence of NO28G00560.1

>NO28G00560.1-protein ID=NO28G00560.1-protein|Name=NO28G00560.1|organism=Nannochloropsis oceanica|type=polypeptide|length=429bp
MRRPLLASQPLAFFPVSLALLLLALPNHGTRAFQLCPTSCTSNRLISSPP
SSSSCSSSSSSSSSSRRITQPQQKPRQEQGRFSKLFQMSTLTSNSNSRRR
SSSSSSSSRGYAERGGTNGSRRRTPSNTLNSNLKAFPSENPPGADGTVRT
STSIHLPAEQQLELARCVKSWVACKETKKEREEMIGRPLSFEEWAVAVGM
EEKTLRRQIEDGKAARELLIKTNINLIKSMAVRLYARQEKNENRLSVDDL
VLEGTQGILKAAAKFDPTRNIRFTTYAVWWIRQAISLAIQTHSNTVRLPV
LLQARIKKIKEARLRLYLLLEREPTHEEVGKEIGLPAGKVESIRRKGGRG
RLVGAEEEWVVVGMAMGNGMDGEEGREEGVQQQAGEGGWGWSKGERGRWW
WMERVERLREGGRNDGNLRRLRNRWCCV*

mRNA from alignment at chr28:198798..201529-

Legend: polypeptideCDS

Hold the cursor over a type above to highlight its positions in the sequence below.

>NO28G00560.1 ID=NO28G00560.1|Name=NO28G00560.1|organism=Nannochloropsis oceanica|type=mRNA|length=2732bp|location=Sequence derived from alignment at chr28:198798..201529- (Nannochloropsis oceanica)
GCCTGCATAGACGTGAAACAGAGACAGGCGACTGGACGGCACCAAATAAA
TTACTGGACAGCAAACAATATGTTGAGCTGACATGCCGAGGATAAAGTGC
AGCGCTCCACACGACGGTGAGAGCACGCTTGATGCGTCAGGTTTTGATCA
AGGAGTATGAAGACAGTGTCGATTCATCCCACGGGATGTTCCAATTAATC
GTTCCAAGTTTGTCGATGCTGTGTCTCTTCCTTTTATTCGCTCCACTTTG
CTTTGAAGAACGCTTTGCTTATCTCTGTCAAGCCTACCCGGAGGTTATAC
CGTGACCGTGACTGCTGACTCGGAAAAGAGAGGTGCGTGTGTCGGTCTGA
TGCGGTGTTCCTGATACTTGCTTTGGGCATACGGCGCCTTTTTAATGCTC
ATTTCCGGGCATTTTCCGGTGGCTCTGGGTACGAATCTGGCAGTACTAGG
CGAGAGTATGAGCAATATCGTGGCTCGCCCTCGGCAACATCCCAACCATC
AATTAACCCTCAGCAGATCTAGAAGACTCCCGGGCTTGGACCACTCGCTG
ACCACGCCGATCATGATCAGCATGCGTGCTTGCGCGTGTGCCCTTTGGCC
AACCCCTTTTCCACTGCACTGTCCTTGGCGTGTCTTGTGCCGCGCTCTCA
CTCAAGTCACTCTCTTTCTCATAATCCTCCCACAATCATAAAAACAAACA
GCAGCAACGTCACGCGGGACACGAAAACAGCACACACTAACCCAGCCTGC
CCCTGGACATACCCCGTAAAAGTATTTCTGCACCGCCCACACCACCACCA
GCAGCAACAGAGACTGCATAAGACTGGCACTCAGGATGCGACGTCCATTA
CTCGCCAGCCAGCCCTTGGCATTTTTTCCCGTCTCCCTCGCCCTCCTCCT
ACTCGCCCTCCCCAATCACGGTTCGTGCATGCGTGGCGAATCCCGTCGTT
TAGATGACCTATCCATTGGGCATATCACCCATGCCTGTGCGTCTGTTTTC
GCAACGCATGGACGCAAGGGGCATGGCATTCAGGGAGTGGTGACGTAGTT
CATTACCTGTCCCCTCTCTCTATGATTATCATTTATGCCCACCGTCCTTC
TATTCGTGATCCCATCCTGTATATTTCACCATTCCTCAAAGCTTACCCTT
CCTTCACTCCCTCTCTTTTTTTCTTTCTCCCTCCCTCCCTCCCTCTTCTC
CTCATCACAGGTACACGCGCCTTCCAATTATGTCCGACGTCCTGTACAAG
TAACAGGCTCATCTCCTCCCCTCCCTCCTCATCCAGTTGTAGTAGCAGTA
GCAGCAGCAGCAGCAGCAGTCGGAGAATAACACAACCACAACAAAAGCCA
AGACAAGAACAAGGTCGTTTCTCCAAACTCTTTCAAATGAGCACTCTCAC
CAGCAATAGCAACAGCAGAAGAAGAAGCAGCAGCAGCAGCAGCAGCAGCA
GGGGCTACGCCGAACGCGGCGGTACGAATGGGAGCCGTCGTCGCACCCCC
AGCAACACACTTAATAGCAATTTGAAAGCTTTTCCTTCAGAGAATCCACC
GGGAGCCGACGGAACTGTCAGAACAAGCACATCGATCCACTTGCCTGCAG
AGGTACGTTCCATCTCGCCTTTCACACACCCCTCCCTCCCTTCCTTCCTC
GCTCCTTCCTTCCAGGGCATCCTTTTAAATTGACCTTCCTTCCCTACCGT
CTCTTTTTTATTTGATAACAGCAACAATTGGAACTGGCCCGATGCGTCAA
GTCGTGGGTAGCGTGCAAGGAGACGAAAAAAGAACGAGAAGAAATGATCG
GGAGACCGTTGTCTTTTGAAGAGTGGGCCGTGGCCGTTGGAATGGAGGAA
AAGACGCTGCGAAGACAGATCGAAGACGGGAAGGCGGCGAGGGAGCTGCT
GATCAAGACGAACATTAACTTGATCAAGTCCATGGCAGTGCGATTGTACG
CCCGCCAGGAGAAGAACGAGAACAGGCTCAGCGTGGATGATCTGGTGCTC
GAGGGGACTCAAGGTAAGGAACGAGGAAGAGAGGGAGGGGAGGATGGGGG
GGAGATGAGAGGGATCGAAGAGGTATGAAGAATGGGTTGTGAATCTCTAC
TGTACCCGTCTCCAGCGCGTTCAGACGACGTAATAAAGGTCATGTCCCTT
GCACCCGTCTCAGCACCCCCTCCCTCCCCCCCTCCCTCTCCCTCTCCCTC
CTTCCCTTCCTCAGGCATTTTGAAAGCAGCGGCCAAATTCGATCCTACCC
GGAACATCCGCTTCACGACCTACGCCGTGTGGTGGATCCGTCAGGCCATC
TCCCTGGCCATCCAGACGCACAGCAACACCGTCCGCCTCCCCGTTCTCCT
CCAAGCACGCATAAAGAAAATAAAGGAAGCTCGTCTGCGCCTTTACCTCT
TGCTGGAGCGGGAGCCCACGCATGAAGAGGTGGGGAAGGAAATCGGTCTG
CCGGCAGGGAAGGTAGAATCGATCAGGAGGAAGGGGGGGAGGGGCCGTCT
GGTGGGCGCAGAAGAGGAATGGGTGGTCGTGGGCATGGCGATGGGCAACG
GCATGGACGGGGAAGAAGGAAGGGAGGAAGGTGTCCAACAGCAGGCGGGA
GAGGGGGGATGGGGATGGTCGAAGGGGGAGAGGGGCCGTTGGTGGTGGAT
GGAAAGGGTGGAGAGACTGAGGGAGGGAGGGAGGAACGACGGAAACTTGA
GGCGTTTAAGAAATCGGTGGTGTTGCGTTTGA

Coding sequence (CDS) from alignment at chr28:198798..201529-

>NO28G00560.1 ID=NO28G00560.1|Name=NO28G00560.1|organism=Nannochloropsis oceanica|type=CDS|length=1287bp|location=Sequence derived from alignment at chr28:198798..201529- (Nannochloropsis oceanica)
ATGCGACGTCCATTACTCGCCAGCCAGCCCTTGGCATTTTTTCCCGTCTC
CCTCGCCCTCCTCCTACTCGCCCTCCCCAATCACGGTACACGCGCCTTCC
AATTATGTCCGACGTCCTGTACAAGTAACAGGCTCATCTCCTCCCCTCCC
TCCTCATCCAGTTGTAGTAGCAGTAGCAGCAGCAGCAGCAGCAGTCGGAG
AATAACACAACCACAACAAAAGCCAAGACAAGAACAAGGTCGTTTCTCCA
AACTCTTTCAAATGAGCACTCTCACCAGCAATAGCAACAGCAGAAGAAGA
AGCAGCAGCAGCAGCAGCAGCAGCAGGGGCTACGCCGAACGCGGCGGTAC
GAATGGGAGCCGTCGTCGCACCCCCAGCAACACACTTAATAGCAATTTGA
AAGCTTTTCCTTCAGAGAATCCACCGGGAGCCGACGGAACTGTCAGAACA
AGCACATCGATCCACTTGCCTGCAGAGCAACAATTGGAACTGGCCCGATG
CGTCAAGTCGTGGGTAGCGTGCAAGGAGACGAAAAAAGAACGAGAAGAAA
TGATCGGGAGACCGTTGTCTTTTGAAGAGTGGGCCGTGGCCGTTGGAATG
GAGGAAAAGACGCTGCGAAGACAGATCGAAGACGGGAAGGCGGCGAGGGA
GCTGCTGATCAAGACGAACATTAACTTGATCAAGTCCATGGCAGTGCGAT
TGTACGCCCGCCAGGAGAAGAACGAGAACAGGCTCAGCGTGGATGATCTG
GTGCTCGAGGGGACTCAAGGCATTTTGAAAGCAGCGGCCAAATTCGATCC
TACCCGGAACATCCGCTTCACGACCTACGCCGTGTGGTGGATCCGTCAGG
CCATCTCCCTGGCCATCCAGACGCACAGCAACACCGTCCGCCTCCCCGTT
CTCCTCCAAGCACGCATAAAGAAAATAAAGGAAGCTCGTCTGCGCCTTTA
CCTCTTGCTGGAGCGGGAGCCCACGCATGAAGAGGTGGGGAAGGAAATCG
GTCTGCCGGCAGGGAAGGTAGAATCGATCAGGAGGAAGGGGGGGAGGGGC
CGTCTGGTGGGCGCAGAAGAGGAATGGGTGGTCGTGGGCATGGCGATGGG
CAACGGCATGGACGGGGAAGAAGGAAGGGAGGAAGGTGTCCAACAGCAGG
CGGGAGAGGGGGGATGGGGATGGTCGAAGGGGGAGAGGGGCCGTTGGTGG
TGGATGGAAAGGGTGGAGAGACTGAGGGAGGGAGGGAGGAACGACGGAAA
CTTGAGGCGTTTAAGAAATCGGTGGTGTTGCGTTTGA

Synonyms

Publications