|
|
Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00001283 ID=TCONS_00001283|Name=TCONS_00001283|organism=Clytia hemisphaerica|type=transcript|length=1110bp
GCTTCCTGTCAAGCTTCTATATTTTCCCAAGGTATCATAACTTGTTCCTA
ATGCTCACCAACAAGtatatttattaaattttatcttttctgttgttttt
atagaaataaaaaaatggatCAGGAAGATAAAAAAGTGCCAACCATAACG
AAAATAGGCGATAAGTATTTTTTATGGAATGAAGAGGATGTATTGAAATT
GAGAAAAACTCACCGTATATGTGGTGTGACTGTTGGTTCACTACCAAGGA
AACCATGGCAGAATAATGTGCTGTCACTCCCTGTTCTCCTCATGTCTGTT
GAAGTATCGTTGTGTTTATCAAGAAATTTAGCatgtttgaaaacaataga
tagGTCGAGGAAACGTAAAGTAGATGTTGAACAGTTGAATGATTTTCGTT
CTCGACAAGAGGATGAACAAATAAGGATTTTCAAGAAAGAGAAACAAATG
AAAAGTCAAATGTTTTATGGtcataaaaagcaaaagaaagcGGAAAGGAA
ATGGCAAGAAATGGTGGATGAAGACGTCGCTCGTTTTCGTCAACAATATA
AAAAGGATGAATCTGTGACAACAGAAGCTGTTAGTGGAAACACTGGTGTG
GAAGATTCTGTTGAACATAAACAAGTGATAGAAATTACAGAGAACGATCG
GAAATATTACAACCATTCTATTCGAGTACACATCCCAACACAAATGACTG
ACCAGCAAATACTTTCTAAATGTATCTTTGACTTTCCTTCCAACAAGAAA
GATGAAGTTTTATGTCAAGTATTCACTGACTTATGGGAGAAAGGATATTA
CATCACGTCAGCGGAGAAATTTGGTGGTGATTTCCTTGTTTACCCCGGTG
ATCCAATGCGATATCACTCGAAATTTATTGTTTCTGTTGTCATGGATACA
AATAATCAAATGACTGCTCAGGAACTAGTTATTTACGGTCGACTTGGGTC
GGCAGTCAAGAAAACTGTTGTTTTAGCTAGTGTGGCTGAACAAAATACTG
TTCAATATGTCTCACTATCATGGAAAAACTTATAAACTGtactatttttc
ttttattgtattCACCATTACTGTATACAATTTCTAATGGTTTGTCATTA
ACTTGAGAAT Run BLAST on NCBI protein sequence of TCONS_00001283-protein >TCONS_00001283-protein ID=TCONS_00001283-protein|Name=TCONS_00001283-protein|organism=Clytia hemisphaerica|type=polypeptide|length=306bp
MDQEDKKVPTITKIGDKYFLWNEEDVLKLRKTHRICGVTVGSLPRKPWQN
NVLSLPVLLMSVEVSLCLSRNLACLKTIDRSRKRKVDVEQLNDFRSRQED
EQIRIFKKEKQMKSQMFYGHKKQKKAERKWQEMVDEDVARFRQQYKKDES
VTTEAVSGNTGVEDSVEHKQVIEITENDRKYYNHSIRVHIPTQMTDQQIL
SKCIFDFPSNKKDEVLCQVFTDLWEKGYYITSAEKFGGDFLVYPGDPMRY
HSKFIVSVVMDTNNQMTAQELVIYGRLGSAVKKTVVLASVAEQNTVQYVS
LSWKNL Run BLAST on NCBI transcript from alignment at sc0000007:689044..690153 Legend: exonthree_prime_UTRCDSfive_prime_UTR Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00001283 ID=TCONS_00001283|Name=TCONS_00001283|organism=Clytia hemisphaerica|type=transcript|length=1110bp|location=Sequence derived from alignment at sc0000007:689044..690153 (Clytia hemisphaerica)
ATTCTCAAGTTAATGACAAACCATTAGAAATTGTATACAGTAATGGTGaa
tacaataaaagaaaaatagtaCAGTTTATAAGTTTTTCCATGATAGTGAG
ACATATTGAACAGTATTTTGTTCAGCCACACTAGCTAAAACAACAGTTTT
CTTGACTGCCGACCCAAGTCGACCGTAAATAACTAGTTCCTGAGCAGTCA
TTTGATTATTTGTATCCATGACAACAGAAACAATAAATTTCGAGTGATAT
CGCATTGGATCACCGGGGTAAACAAGGAAATCACCACCAAATTTCTCCGC
TGACGTGATGTAATATCCTTTCTCCCATAAGTCAGTGAATACTTGACATA
AAACTTCATCTTTCTTGTTGGAAGGAAAGTCAAAGATACATTTAGAAAGT
ATTTGCTGGTCAGTCATTTGTGTTGGGATGTGTACTCGAATAGAATGGTT
GTAATATTTCCGATCGTTCTCTGTAATTTCTATCACTTGTTTATGTTCAA
CAGAATCTTCCACACCAGTGTTTCCACTAACAGCTTCTGTTGTCACAGAT
TCATCCTTTTTATATTGTTGACGAAAACGAGCGACGTCTTCATCCACCAT
TTCTTGCCATTTCCTTTCCgctttcttttgctttttatgaCCATAAAACA
TTTGACTTTTCATTTGTTTCTCTTTCTTGAAAATCCTTATTTGTTCATCC
TCTTGTCGAGAACGAAAATCATTCAACTGTTCAACATCTACTTTACGTTT
CCTCGACctatctattgttttcaaacatGCTAAATTTCTTGATAAACACA
ACGATACTTCAACAGACATGAGGAGAACAGGGAGTGACAGCACATTATTC
TGCCATGGTTTCCTTGGTAGTGAACCAACAGTCACACCACATATACGGTG
AGTTTTTCTCAATTTCAATACATCCTCTTCATTCCATAAAAAATACTTAT
CGCCTATTTTCGTTATGGTTGGCACTTTTTTATCTTCCTGatccattttt
ttatttctataaaaacaacagaaaagataaaatttaataaatataCTTGT
TGGTGAGCATTAGGAACAAGTTATGATACCTTGGGAAAATATAGAAGCTT
GACAGGAAGC Coding sequence (CDS) from alignment at sc0000007:689044..690153 >TCONS_00001283 ID=TCONS_00001283|Name=TCONS_00001283|organism=Clytia hemisphaerica|type=CDS|length=921bp|location=Sequence derived from alignment at sc0000007:689044..690153 (Clytia hemisphaerica)
TTATAAGTTTTTCCATGATAGTGAGACATATTGAACAGTATTTTGTTCAG
CCACACTAGCTAAAACAACAGTTTTCTTGACTGCCGACCCAAGTCGACCG
TAAATAACTAGTTCCTGAGCAGTCATTTGATTATTTGTATCCATGACAAC
AGAAACAATAAATTTCGAGTGATATCGCATTGGATCACCGGGGTAAACAA
GGAAATCACCACCAAATTTCTCCGCTGACGTGATGTAATATCCTTTCTCC
CATAAGTCAGTGAATACTTGACATAAAACTTCATCTTTCTTGTTGGAAGG
AAAGTCAAAGATACATTTAGAAAGTATTTGCTGGTCAGTCATTTGTGTTG
GGATGTGTACTCGAATAGAATGGTTGTAATATTTCCGATCGTTCTCTGTA
ATTTCTATCACTTGTTTATGTTCAACAGAATCTTCCACACCAGTGTTTCC
ACTAACAGCTTCTGTTGTCACAGATTCATCCTTTTTATATTGTTGACGAA
AACGAGCGACGTCTTCATCCACCATTTCTTGCCATTTCCTTTCCgctttc
ttttgctttttatgaCCATAAAACATTTGACTTTTCATTTGTTTCTCTTT
CTTGAAAATCCTTATTTGTTCATCCTCTTGTCGAGAACGAAAATCATTCA
ACTGTTCAACATCTACTTTACGTTTCCTCGACctatctattgttttcaaa
catGCTAAATTTCTTGATAAACACAACGATACTTCAACAGACATGAGGAG
AACAGGGAGTGACAGCACATTATTCTGCCATGGTTTCCTTGGTAGTGAAC
CAACAGTCACACCACATATACGGTGAGTTTTTCTCAATTTCAATACATCC
TCTTCATTCCATAAAAAATACTTATCGCCTATTTTCGTTATGGTTGGCAC
TTTTTTATCTTCCTGatccat
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_00001283-exon-sc0000007-1491911889:689044..690153 | TCONS_00001283-exon-sc0000007-1491911889:689044..690153 | Clytia hemisphaerica | exon |
| TCONS_00001283-exon-sc0000007-1510915933:689044..690153 | TCONS_00001283-exon-sc0000007-1510915933:689044..690153 | Clytia hemisphaerica | exon |
| TCONS_00001283-exon-sc0000007-1575043694:689044..690153 | TCONS_00001283-exon-sc0000007-1575043694:689044..690153 | Clytia hemisphaerica | exon |
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
|---|
| sc0000007 | supercontig | sc0000007:689044..690153 . |
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
| Term | Definition |
|---|
| IPR016690 | tRNA_splic_SEN34 |
| IPR006677 | tRNA_intron_Endonuc_cat-like |
Vocabulary: Cellular Component
| Term | Definition |
|---|
| GO:0000214 | tRNA-intron endonuclease complex |
Vocabulary: Biological Process
| Term | Definition |
|---|
| GO:0000379 | tRNA-type intron splice site recognition and cleavage |
| GO:0006388 | tRNA splicing, via endonucleolytic cleavage and ligation |
Vocabulary: Molecular Function
| Term | Definition |
|---|
| GO:0000213 | tRNA-intron endonuclease activity |
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
| Category |
Term Accession |
Term Name |
| biological_process |
GO:0006388 |
tRNA splicing, via endonucleolytic cleavage and ligation |
| biological_process |
GO:0000379 |
tRNA-type intron splice site recognition and cleavage |
| cellular_component |
GO:0000214 |
tRNA-intron endonuclease complex |
| molecular_function |
GO:0000213 |
tRNA-intron endonuclease activity |
Blast
BLAST of TCONS_00001283 vs. Swiss-Prot (Human)
Match: SEN34 (tRNA-splicing endonuclease subunit Sen34 OS=Homo sapiens GN=TSEN34 PE=1 SV=1) HSP 1 Score: 132.88 bits (333), Expect = 3.666e-35 Identity = 92/308 (29.87%), Postives = 148/308 (48.05%), Query Frame = 1
Query: 163 KYFLWNEEDVLKLRKTHRICGVTVGSLPRKPWQNNVLSLPVLLMSVEVSLCLSRNLACLKTIDRSRKRKVDVEQLNDFRSRQED---EQIRIFKKEKQMKSQMFY-----GHKKQKKAERKWQEMVDEDVARFRQQYKKDESVTTEAVSGNTGVEDSVEHKQVIEITENDRKYYNHSIRVHIPT--------QMTDQQILSKCIFDFPSNKKD--EVLCQVFTDLWEKGYYITSAEKFGGDFLVYPGDPMRYHSKFIVSVVMDTNNQMTAQELVIYGRLGSAVKKTVVLASVAEQNTVQYVSLSWKNL 1032
+ +W E V LR+ + G TVG+LPR P QN+ L LP+LLM E L L + R R + L F+ +QE+ EQ + + ++ + Q G +K+ + A Q K+DE+ +A SG E++ + ++ V + T + D ++ SK D+P + E+ ++ DLWE+G+++++A KFGGDFLVYPGDP+R+H+ +I + + Q+LV GRLG++V+KT++L S V Y SL W +L
Sbjct: 10 RSLVWGAEAVQALRERLGVGGRTVGALPRGPRQNSRLGLPLLLMPEEARLLAEIGAVTLVSAPRPDSRHHSLA-LTSFKRQQEESFQEQSALAAEARETRRQELLEKITEGQAAKKQKLEQASGASSSQEAGSSQAAKEDETSDGQA-SGEQ--EEAGPSSSQAGPSNGVAPLPRSALLVQLATARPRPVKARPLDWRVQSK---DWPHAGRPAHELRYSIYRDLWERGFFLSAAGKFGGDFLVYPGDPLRFHAHYIAQ-CWAPEDTIPLQDLVAAGRLGTSVRKTLLLCSPQPDGKVVYTSLQWASL 309
The following BLAST results are available for this feature:
|
