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Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00054872 ID=TCONS_00054872|Name=TCONS_00054872|organism=Clytia hemisphaerica|type=transcript|length=1558bp
TCNGTCAAAAATGCCCCAGCTTGGAAGAGTTGAATCTATCACACAATTCT
GTCAAATATTTGGATGAGCTATCGAAGATTTCTGATTGTAAAACGATCAC
TAAGTTATGGTTCAGTGATAACCCAGCAAAGGACCAGTATGAGAACGATG
ACAGTGGCTATGTATCTGCTATTCGTAAACACCTGCCTAGCATCAAAGAG
TTGGATGGAGTAATTCTCCCACCACCCATCACCTTTGATTTGGTCGACGA
CAAGAAGACACTACCAACCGTTCATAAGTCGTACAGCTGTAATACAGAAG
CTACAAGTATCCTCAAAAATTTTGTGGAAGGTTTCTTCAAGATTTACGAT
TCTGCAGACACGAATAATCGCCAAGAGCTTCTGCAAGCCTACCACAATNA
ATGATGATGATGACCAAGATGGTGATGCTTCCATGGGCGGCAATAGATCA
GGGCGTTTCAATCCTTACGGTGGGCGTGGTGGTGGCGGTGGAAACAGAGA
AAGAGATCGATCGCCGACAAACTCGTCAGAATGGTGGAAAGTCATCATTC
CCAATGGATCATCTCATGATAGAGAATGGCTGANAAACAAAACTCTAAag
gactgaatgattatttcaATCATAGCCGAAATCTTGTCACTTTAAAAAGC
ATGGAGAAGAAAACGAGTTTAGTTAAAAATAAGAAGTTATCAGTAGTTGC
TCTCCTTACAGAGCTTCCCGCCACACGTCATTTACTGGAGTCACTCATAC
TAGATGTTTGTCTTGTCACCAACGAATGTTTGGTCTTCAATTTGAAAGGT
ATCTTTTTGGAAGGAAAAGATCTGACACCGAGAGGCTTCACTCGATCTTT
TGTCGGTGTCCCTGAATCAGGCGCCAAATTTCTGCTCATCAACGATCACT
TGACGGTACGTCAAGCTACGGACAAAGAGATCGCAAGTCTTGAAAATGGT
ATTACCCAAAGCTCTAGTACTGGGGCTGCTGTGTCACCAAATCTATCTGC
TGAACAACAAGAAATGTTACAAAGATTTTCGCAACAATCTGGTATGAAAC
CGAAATATTCATTAGATTGTCTCTCATCAAGTAACTGGGACTTCCAGGCT
GCTGCAGCCAAATTTAACGAATTAAAACAAGGTGGTAAATTGCCTCCTGA
CGCTTTTGGTGtataatatttttagttttagttagtattttgtttatatt
attACCTCGCCGACTATAGAGGTCACTTAGATTTTTTAACattaattttt
attaaattttaaatttttatgtttCGACTTGCTTACCCTTAAATTACGAG
TTTCTTTATCTCTTTATTGATTTAATAGTTTCTGACACTTTCTGAAATTA
TATAGTAGTATAATATCACCAAAAGAGTTCAATTTTTTACTACTTTTGAT
TTGGTTCAGTTTTTGTTCCGCTGAAAATTTCGACAGTGACCCTTTTAATG
CACAGTCTCTATGAATTGTAGAAATTTGAGAGAGCCGACAATTTTTGTGG
AGTatataaatttatataaaaaaaaagcaaacgattaaatatttttcctt
ttacCTAG Run BLAST on NCBI protein sequence of TCONS_00054872-protein >TCONS_00054872-protein ID=TCONS_00054872-protein|Name=TCONS_00054872-protein|organism=Clytia hemisphaerica|type=polypeptide|length=196bp
MAXKQNSKGLNDYFNHSRNLVTLKSMEKKTSLVKNKKLSVVALLTELPAT
RHLLESLILDVCLVTNECLVFNLKGIFLEGKDLTPRGFTRSFVGVPESGA
KFLLINDHLTVRQATDKEIASLENGITQSSSTGAAVSPNLSAEQQEMLQR
FSQQSGMKPKYSLDCLSSSNWDFQAAAAKFNELKQGGKLPPDAFGV Run BLAST on NCBI transcript from alignment at scaffold_245:523874..525431 Legend: exonthree_prime_UTRCDSfive_prime_UTR Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00054872 ID=TCONS_00054872|Name=TCONS_00054872|organism=Clytia hemisphaerica|type=transcript|length=1558bp|location=Sequence derived from alignment at scaffold_245:523874..525431 (Clytia hemisphaerica)
CTAGgtaaaaggaaaaatatttaatcgtttgctttttttttatataaatt
tatatACTCCACAAAAATTGTCGGCTCTCTCAAATTTCTACAATTCATAG
AGACTGTGCATTAAAAGGGTCACTGTCGAAATTTTCAGCGGAACAAAAAC
TGAACCAAATCAAAAGTAGTAAAAAATTGAACTCTTTTGGTGATATTATA
CTACTATATAATTTCAGAAAGTGTCAGAAACTATTAAATCAATAAAGAGA
TAAAGAAACTCGTAATTTAAGGGTAAGCAAGTCGaaacataaaaatttaa
aatttaataaaaattaatGTTAAAAAATCTAAGTGACCTCTATAGTCGGC
GAGGTaataatataaacaaaatactaactaaaactaaaaatattataCAC
CAAAAGCGTCAGGAGGCAATTTACCACCTTGTTTTAATTCGTTAAATTTG
GCTGCAGCAGCCTGGAAGTCCCAGTTACTTGATGAGAGACAATCTAATGA
ATATTTCGGTTTCATACCAGATTGTTGCGAAAATCTTTGTAACATTTCTT
GTTGTTCAGCAGATAGATTTGGTGACACAGCAGCCCCAGTACTAGAGCTT
TGGGTAATACCATTTTCAAGACTTGCGATCTCTTTGTCCGTAGCTTGACG
TACCGTCAAGTGATCGTTGATGAGCAGAAATTTGGCGCCTGATTCAGGGA
CACCGACAAAAGATCGAGTGAAGCCTCTCGGTGTCAGATCTTTTCCTTCC
AAAAAGATACCTTTCAAATTGAAGACCAAACATTCGTTGGTGACAAGACA
AACATCTAGTATGAGTGACTCCAGTAAATGACGTGTGGCGGGAAGCTCTG
TAAGGAGAGCAACTACTGATAACTTCTTATTTTTAACTAAACTCGTTTTC
TTCTCCATGCTTTTTAAAGTGACAAGATTTCGGCTATGATtgaaataatc
attcagtcctTTAGAGTTTTGTTTNTCAGCCATTCTCTATCATGAGATGA
TCCATTGGGAATGATGACTTTCCACCATTCTGACGAGTTTGTCGGCGATC
GATCTCTTTCTCTGTTTCCACCGCCACCACCACGCCCACCGTAAGGATTG
AAACGCCCTGATCTATTGCCGCCCATGGAAGCATCACCATCTTGGTCATC
ATCATCATTNATTGTGGTAGGCTTGCAGAAGCTCTTGGCGATTATTCGTG
TCTGCAGAATCGTAAATCTTGAAGAAACCTTCCACAAAATTTTTGAGGAT
ACTTGTAGCTTCTGTATTACAGCTGTACGACTTATGAACGGTTGGTAGTG
TCTTCTTGTCGTCGACCAAATCAAAGGTGATGGGTGGTGGGAGAATTACT
CCATCCAACTCTTTGATGCTAGGCAGGTGTTTACGAATAGCAGATACATA
GCCACTGTCATCGTTCTCATACTGGTCCTTTGCTGGGTTATCACTGAACC
ATAACTTAGTGATCGTTTTACAATCAGAAATCTTCGATAGCTCATCCAAA
TATTTGACAGAATTGTGTGATAGATTCAACTCTTCCAAGCTGGGGCATTT
TTGACNGA Coding sequence (CDS) from alignment at scaffold_245:523874..525431 >TCONS_00054872 ID=TCONS_00054872|Name=TCONS_00054872|organism=Clytia hemisphaerica|type=CDS|length=591bp|location=Sequence derived from alignment at scaffold_245:523874..525431 (Clytia hemisphaerica)
ttataCACCAAAAGCGTCAGGAGGCAATTTACCACCTTGTTTTAATTCGT
TAAATTTGGCTGCAGCAGCCTGGAAGTCCCAGTTACTTGATGAGAGACAA
TCTAATGAATATTTCGGTTTCATACCAGATTGTTGCGAAAATCTTTGTAA
CATTTCTTGTTGTTCAGCAGATAGATTTGGTGACACAGCAGCCCCAGTAC
TAGAGCTTTGGGTAATACCATTTTCAAGACTTGCGATCTCTTTGTCCGTA
GCTTGACGTACCGTCAAGTGATCGTTGATGAGCAGAAATTTGGCGCCTGA
TTCAGGGACACCGACAAAAGATCGAGTGAAGCCTCTCGGTGTCAGATCTT
TTCCTTCCAAAAAGATACCTTTCAAATTGAAGACCAAACATTCGTTGGTG
ACAAGACAAACATCTAGTATGAGTGACTCCAGTAAATGACGTGTGGCGGG
AAGCTCTGTAAGGAGAGCAACTACTGATAACTTCTTATTTTTAACTAAAC
TCGTTTTCTTCTCCATGCTTTTTAAAGTGACAAGATTTCGGCTATGATtg
aaataatcattcagtcctTTAGAGTTTTGTTTNTCAGCCAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
The following polypeptide feature(s) derives from this transcript:
The following exon feature(s) are a part of this transcript:
| Feature Name | Unique Name | Species | Type |
|---|
| TCONS_00054872-exon-scaffold_245-1491911889:523874..525431 | TCONS_00054872-exon-scaffold_245-1491911889:523874..525431 | Clytia hemisphaerica | exon |
| TCONS_00054872-exon-scaffold_245-1510915933:523874..525431 | TCONS_00054872-exon-scaffold_245-1510915933:523874..525431 | Clytia hemisphaerica | exon |
| TCONS_00054872-exon-scaffold_245-1575043694:523874..525431 | TCONS_00054872-exon-scaffold_245-1575043694:523874..525431 | Clytia hemisphaerica | exon |
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
|---|
| scaffold_245 | supercontig | scaffold_245:523874..525431 . |
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Biological Process
| Term | Definition |
|---|
| GO:0051028 | mRNA transport |
Vocabulary: Cellular Component
| Term | Definition |
|---|
| GO:0005634 | nucleus |
Vocabulary: Molecular Function
| Term | Definition |
|---|
| GO:0005515 | protein binding |
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
| Category |
Term Accession |
Term Name |
| biological_process |
GO:0051028 |
mRNA transport |
| cellular_component |
GO:0005634 |
nucleus |
| molecular_function |
GO:0005515 |
protein binding |
Blast
BLAST of TCONS_00054872 vs. Swiss-Prot (Human)
Match: NXF1 (Nuclear RNA export factor 1 OS=Homo sapiens GN=NXF1 PE=1 SV=1) HSP 1 Score: 136.346 bits (342), Expect = 2.585e-34 Identity = 80/190 (42.11%), Postives = 112/190 (58.95%), Query Frame = 3
Query: 603 LNDYFNHSRNLVTLKSMEKKTSLVKNKKLSVVALLTELPATRHLLESLILDVCLVTNECLVFNLKGIF--LEGKDLTP-RGFTRSFVGVPESGAKFLLINDHLTVRQATDKEI--ASLENGITQSSSTGAAVSPNLSAEQQEMLQRFSQQSGMKPKYSLDCLSSSNWDFQAAAAKFNELKQGGKLPPDAF 1157
L +YF SRN+ LK + L+K+ +L+VVA L ELP T+H + S ++D+ T+ L F++ G+F ++GK R FTR+F+ VP S + ++ND L VR A+ +EI A T SSS P LS EQQEMLQ FS QSGM ++S CL +NWD+ +A F LK G++P AF
Sbjct: 432 LAEYFKDSRNVKKLKDPTLRFRLLKHTRLNVVAFLNELPKTQHDVNSFVVDISAQTSTLLCFSVNGVFKEVDGKSRDSLRAFTRTFIAVPASNSGLCIVNDELFVRNASSEEIQRAFAMPAPTPSSSP----VPTLSPEQQEMLQAFSTQSGMNLEWSQKCLQDNNWDYTRSAQAFTHLKAKGEIPEVAF 617 HSP 2 Score: 93.2041 bits (230), Expect = 5.963e-20 Identity = 57/131 (43.51%), Postives = 75/131 (57.25%), Query Frame = 3
Query: 6 QKCPSLEELNLSHNSVKYLDELSKISDCKTITKLWFSDNPAKDQYENDDSGYVSAIRKHLPSIKELDGVILPPPITFDLVDDKKTLPTVHKSYSCNTEATSILKNFVEGFFKIYDSADTNNRQELLQAYHN 398
QK P+L+ LNLS N +K EL KI K + +LW N D + D S Y+SAIR+ P + LDG LPPPI FD V+ TLP SY S++ +F++ ++ IYDS D RQ LL AYH+
Sbjct: 288 QKAPNLKILNLSGNELKSERELDKIKGLK-LEELWLDGNSLCDTFR-DQSTYISAIRERFPKLLRLDGHELPPPIAFD-VEAPTTLPPCKGSYFGTENLKSLVLHFLQQYYAIYDSGD---RQGLLDAYHD 412
The following BLAST results are available for this feature:
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