TCONS_00006548 (transcript) - C. hemisphaerica

Overview
NameTCONS_00006548
Unique NameTCONS_00006548
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length680

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00006548 ID=TCONS_00006548|Name=TCONS_00006548|organism=Clytia hemisphaerica|type=transcript|length=680bp
NNTTGACGAAAGAGTTCATGATGCTCATGGATTTGCTTGAGATTCCAACA
TCAGGGTGAACTTGTTTCAAGACTTTGTAGATGTACATGGTGTAAGATTC
ACGTCTTTTGCTTCTTCGTTTGTTGGTTTTGGTTCCAGGTTTGCGTCCTC
GTTTCTTCATTGCTTTTCCAGTTTTCTTGGGACTTGCAGCTCTTGATCCA
GCCATAGCGATGGGAAATCGTATCTGATTATGCAGTAAAGCGGAAATGTA
CGAATGCTCTAGCTGAAATCTCTctttatttgtaaaatttggatTACTTG
ACATTCGATTAGAAACGTTCGATTTGAAAATTGGATGCTCTCCTTCCCGT
CCGCATCATCGTCACTTATCTTTCTAAATTGCAGTTCGGACGTGAAAGGA
ACGACAGCGATCGAATTTAGAACTTTCGAACGTTTTGATTCGAACGCTTA
TCAATCGAACGCTGGTTTATCCCACTTTTTATATATAAATAGAAGACTCG
ACTCACAACTATCTCAGTTTTAGTGTCTACAAATATTTGTTATTACTAAA
TTAACTGAAGAAAATGGCTGGTAGCCCACGTAAAGCAAGTCCCAAGAAAG
CTGGAAAAGCAATGAAGAAACGAGGACGCAAACCTGGAACCAAAACCAAC
AAACGAAGAAGCAAAAGACGTGAATCTTAN
Run BLAST on NCBI

protein sequence of TCONS_00006548-protein

>TCONS_00006548-protein ID=TCONS_00006548-protein|Name=TCONS_00006548-protein|organism=Clytia hemisphaerica|type=polypeptide|length=101bp
MSSNPNFTNKERFQLEHSYISALLHNQIRFPIAMAGSRAASPKKTGKAMK
KRGRKPGTKTNKRRSKRRESYTMYIYKVLKQVHPDVGISSKSMSIMNSFV
X
Run BLAST on NCBI

transcript from alignment at sc0000067:259241..259920

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00006548 ID=TCONS_00006548|Name=TCONS_00006548|organism=Clytia hemisphaerica|type=transcript|length=680bp|location=Sequence derived from alignment at sc0000067:259241..259920 (Clytia hemisphaerica)
NTAAGATTCACGTCTTTTGCTTCTTCGTTTGTTGGTTTTGGTTCCAGGTT
TGCGTCCTCGTTTCTTCATTGCTTTTCCAGCTTTCTTGGGACTTGCTTTA
CGTGGGCTACCAGCCATTTTCTTCAGTTAATTTAGTAATAACAAATATTT
GTAGACACTAAAACTGAGATAGTTGTGAGTCGAGTCTTCTATTTATATAT
AAAAAGTGGGATAAACCAGCGTTCGATTGATAAGCGTTCGAATCAAAACG
TTCGAAAGTTCTAAATTCGATCGCTGTCGTTCCTTTCACGTCCGAACTGC
AATTTAGAAAGATAAGTGACGATGATGCGGACGGGAAGGAGAGCATCCAA
TTTTCAAATCGAACGTTTCTAATCGAATGTCAAGTAatccaaattttaca
aataaagAGAGATTTCAGCTAGAGCATTCGTACATTTCCGCTTTACTGCA
TAATCAGATACGATTTCCCATCGCTATGGCTGGATCAAGAGCTGCAAGTC
CCAAGAAAACTGGAAAAGCAATGAAGAAACGAGGACGCAAACCTGGAACC
AAAACCAACAAACGAAGAAGCAAAAGACGTGAATCTTACACCATGTACAT
CTACAAAGTCTTGAAACAAGTTCACCCTGATGTTGGAATCTCAAGCAAAT
CCATGAGCATCATGAACTCTTTCGTCAANN

Coding sequence (CDS) from alignment at sc0000067:259241..259920

>TCONS_00006548 ID=TCONS_00006548|Name=TCONS_00006548|organism=Clytia hemisphaerica|type=CDS|length=303bp|location=Sequence derived from alignment at sc0000067:259241..259920 (Clytia hemisphaerica)
ATGTCAAGTAatccaaattttacaaataaagAGAGATTTCAGCTAGAGCA
TTCGTACATTTCCGCTTTACTGCATAATCAGATACGATTTCCCATCGCTA
TGGCTGGATCAAGAGCTGCAAGTCCCAAGAAAACTGGAAAAGCAATGAAG
AAACGAGGACGCAAACCTGGAACCAAAACCAACAAACGAAGAAGCAAAAG
ACGTGAATCTTACACCATGTACATCTACAAAGTCTTGAAACAAGTTCACC
CTGATGTTGGAATCTCAAGCAAATCCATGAGCATCATGAACTCTTTCGTC
AAN
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_003706XLOC_003706Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00006548-proteinTCONS_00006548-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00006548-exon-sc0000067-1491911889:259241..259920TCONS_00006548-exon-sc0000067-1491911889:259241..259920Clytia hemisphaericaexon
TCONS_00006548-exon-sc0000067-1510915933:259241..259920TCONS_00006548-exon-sc0000067-1510915933:259241..259920Clytia hemisphaericaexon
TCONS_00006548-exon-sc0000067-1575043694:259241..259920TCONS_00006548-exon-sc0000067-1575043694:259241..259920Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000067supercontigsc0000067:259241..259920 .
Expression

Hover the mouse over a column in the graph to view expression values in transcripts per million (tpm).
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset | Show/Hide Values

Values : 
    GrOo_1	 GrOo_2	 FGOo_1	 FGOo_2	 EG_1	 EG_2	 P1_1	 P1_2	 P2_1	 P2_2	 P3_1	 P3_2	 PoPr_1	 PoPr_2	 St_1	 St_2	 GO_1	 GO_2	 PH_1	 PH_2	 BMF_1	 BMF_2	 MMF_1	 MMF_2	 M_1	 M_2	 GEC_1	 GEC_2	 GEN_1	 GEN_2
0.0753243	0	0.0886229	0.333756	0	0	0	0	0	0	0	0.0501656	0	0	0	0	0	0	0	0	0.0728278	0.106569	0	0	6.55563	7.22471	0	0.110228	0	0
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000558Histone_H2B
IPR007125Histone_H2A/H2B/H3
IPR009072Histone-fold
Vocabulary: Cellular Component
TermDefinition
GO:0000786nucleosome
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO:0046982protein heterodimerization activity
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
cellular_component GO:0000786 nucleosome
molecular_function GO:0003677 DNA binding
molecular_function GO:0046982 protein heterodimerization activity
Blast
[Close]
BLAST of TCONS_00006548 vs. Swiss-Prot (Human)
Match: H2B1A (Histone H2B type 1-A OS=Homo sapiens GN=HIST1H2BA PE=1 SV=3)

HSP 1 Score: 72.7886 bits (177), Expect = 4.363e-16
Identity = 40/66 (60.61%), Postives = 49/66 (74.24%), Query Frame = -2 
Query:    5 SRAASPKKTG--KAMKKRGRKPGTKTNKRRSKRRESYTMYIYKVLKQVHPDVGISSKSMSIMNSFV 196
            S+ A+  K G  KA+ K  +K G    KR+  R+ESY++YIYKVLKQVHPD GISSK+MSIMNSFV
Sbjct:    6 SKGATISKKGFKKAVVKTQKKEG---KKRKRTRKESYSIYIYKVLKQVHPDTGISSKAMSIMNSFV 68
The following BLAST results are available for this feature:
BLAST of TCONS_00006548 vs. Swiss-Prot (Human)
Analysis Date: 2017-10-03 (blastx Clytia hemisphaerica v1.0 mRNA vs SwissProt (Homo sapiens))
Total hits: 1
Match NameE-valueIdentityDescription
H2B1A4.363e-1660.61Histone H2B type 1-A OS=Homo sapiens GN=HIST1H2BA ... [more]
back to top