|
|
Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00050178 ID=TCONS_00050178|Name=TCONS_00050178|organism=Clytia hemisphaerica|type=transcript|length=2092bp
TCGTGATTCTTTTGTTGGACTTTTTAATATTGTGTTAAAGTAGCTGTGAA
CATGACGTCAGCatagaaaaatcttaaatttgtTCCTAGTTCTCTATTCG
CtagaaaaacaacaaatcatCAAAAAGGATTGGTGACGAAAATAAAGCGC
TCtctattttgattggttatcAGGTTGTCAATCAAAtccttttatttttc
taatcaTAGACAATATACCCCATTACGATTTTGTTCGAAGGGAACGAGTT
GTGTTGTTGAAGGACGACTAGTGAATAGCTGACTATTATTCGCTTTTTCA
TTGAGAAATTATTACGGTGTTGTTGTTTTATTCTgttgaaaagagttgca
gaacaAGAGGTTTTAGTGTACTTTGAATAAAAGATCATCAAGAAGTTCtt
ggaaatcataaaaagcGCTGTGAAGGAAAACACTACACATGAGAACATTC
AACATACGAACAGTTCATGTACCCCACGAGAAACATTGACCATTTATTTG
TGAGTAAACAGTCCCAGACATTAATAACGGATTTTAATTGCGATTTCCCG
GTAATTTATTATTTGTCTCGCCATATCGAAAGTTGAACATTTCCTGATTT
GTATCGAATTAAAACTATGGCTACAACAATTGGGGCCATTGCTACCCATC
ATACCACAACTGAAACGATAAATGTCAACCATATTAAACCAGATACAGAC
TTTGCCACTCACTCTATGGTGACAACTACCTATGACCCAAATGTACATCA
TGCTGCAATAGACATTTCCAACAGCATGCATGCCTTTGCCACGGAATTAT
CTGTGGACCCAACTAAAGCCGGTGATGATCCTGACAGAATTAAGAGACCA
ATGAACTCTTTCATGGTATGGTCTAGAGAAAAACGTAGAAAGCTTGCTCA
AGAAAACCCTAAAATGCATAACAGTGAAATTAGTAAACGATTAGGAGCTG
AGTGGAAAGTCTTAACTGAGGAAGAGAAGGCACCTTTCGTGTATGAAGCC
AAACGTTTGAGAGCTGAGCATATGAAAACACATCCGGACTATAAGTATAG
GCCAcgtagaaaaaacaaaaatgctccAAAGAAAACTGAGCACAAAATTA
CAATGCCAACTGCTGTTATTGGTGCAGATGGAAAGCAAATCTTTATGCCT
GCACAATATGCAGCTGCACCAGGATATGCAATTGCTTCAGCTGGGGGTAT
GAACTATCCAGTCCCACTAAACGCTGCCTACATGTCAGCCTTGGTGAATG
GTGAAGCTGCTGCCTATCCAGCTGGGACTGCAATGTATGGCATCCCACCT
GGTACGGCAATTGCTGTAGCCGCAACTACAGTTGCTGCACAAACAACACA
GACATCCACAACCGCTGCTACTGCGGTTGTTGCATCTACAGCTCCCCCAA
CAGCGGTGACAGCTGCCCAATTCAGCGTTTTTCCTCCTGGTGCTGCCACC
TACATGTACAGTCCCTTTTCCTTTCCTTATGGTGCAACGATCGCTGGTGG
AGCAGCGGCAGCATACAGTCCTCAAGCTGCTGCAGCCTATCCCCATACTA
TTGCTGTCAAACAAGAAGGTGCTGTGTCACCTGAGAAAACTTCTGGTGAA
GTCAGTAGAACAACATTTGCAACTGCAGCATCAATTGCTGCCCATTATCC
TGGCATTTATTCAGTTCCTATTGCAATTGATCAAAATAGTAATCCTATCG
GTTTTGACCCTAAAATGCATTATGCAACAATGGCAGTAGCTCAAGAAAGG
GTCGCTGCAACTGGTAGTCATCCGGGAAGTCCAGCAAGGAGTACACCAAA
TTCTACGACGGCCAGTGAACATTAAGATTGAAAAATAAACTAATAGTTTC
AATCAAACCAAAATAGACTGCTGTATTATATTCatgtatttgttttttaa
tgttttgtccttttttgtaaagttttttgaaatgaaaaagtacCTTTATT
TATCAAGGATTAGTTTATTTTGAGATGCTATGTATAACTCTCATGGGAAT
TACTTCAAAGGCTTTTGTAAAATGTGATTCAGGGGATTAGATAGAAAAAA
TAACACTAACAAGAAAAGGTTAATTTCTGATGACTAGGGGTN Run BLAST on NCBI protein sequence of SOX3 >TCONS_00050178-protein ID=TCONS_00050178-protein|Name=SOX3|organism=Clytia hemisphaerica|type=polypeptide|length=402bp
MATTIGAIATHHTTTETINVNHIKPDTDFATHSMVTTTYDPNVHHAAIDI
SNSMHAFATELSVDPTKAGDDPDRIKRPMNSFMVWSREKRRKLAQENPKM
HNSEISKRLGAEWKVLTEEEKAPFVYEAKRLRAEHMKTHPDYKYRPRRKN
KNAPKKTEHKITMPTAVIGADGKQIFMPAQYAAAPGYAIASAGGMNYPVP
LNAAYMSALVNGEAAAYPAGTAMYGIPPGTAIAVAATTVAAQTTQTSTTA
ATAVVASTAPPTAVTAAQFSVFPPGAATYMYSPFSFPYGATIAGGAAAAY
SPQAAAAYPHTIAVKQEGAVSPEKTSGEVSRTTFATAASIAAHYPGIYSV
PIAIDQNSNPIGFDPKMHYATMAVAQERVAATGSHPGSPARSTPNSTTAS
EH Run BLAST on NCBI transcript from alignment at scaffold_167:1130481..1132572 Legend: exonthree_prime_UTRCDSfive_prime_UTR Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00050178 ID=TCONS_00050178|Name=TCONS_00050178|organism=Clytia hemisphaerica|type=transcript|length=2092bp|location=Sequence derived from alignment at scaffold_167:1130481..1132572 (Clytia hemisphaerica)
NACCCCTAGTCATCAGAAATTAACCTTTTCTTGTTAGTGTTATTTTTTCT
ATCTAATCCCCTGAATCACATTTTACAAAAGCCTTTGAAGTAATTCCCAT
GAGAGTTATACATAGCATCTCAAAATAAACTAATCCTTGATAAATAAAGg
tactttttcatttcaaaaaactttacaaaaaaggacaaaacattaaaaaa
caaatacatGAATATAATACAGCAGTCTATTTTGGTTTGATTGAAACTAT
TAGTTTATTTTTCAATCTTAATGTTCACTGGCCGTCGTAGAATTTGGTGT
ACTCCTTGCTGGACTTCCCGGATGACTACCAGTTGCAGCGACCCTTTCTT
GAGCTACTGCCATTGTTGCATAATGCATTTTAGGGTCAAAACCGATAGGA
TTACTATTTTGATCAATTGCAATAGGAACTGAATAAATGCCAGGATAATG
GGCAGCAATTGATGCTGCAGTTGCAAATGTTGTTCTACTGACTTCACCAG
AAGTTTTCTCAGGTGACACAGCACCTTCTTGTTTGACAGCAATAGTATGG
GGATAGGCTGCAGCAGCTTGAGGACTGTATGCTGCCGCTGCTCCACCAGC
GATCGTTGCACCATAAGGAAAGGAAAAGGGACTGTACATGTAGGTGGCAG
CACCAGGAGGAAAAACGCTGAATTGGGCAGCTGTCACCGCTGTTGGGGGA
GCTGTAGATGCAACAACCGCAGTAGCAGCGGTTGTGGATGTCTGTGTTGT
TTGTGCAGCAACTGTAGTTGCGGCTACAGCAATTGCCGTACCAGGTGGGA
TGCCATACATTGCAGTCCCAGCTGGATAGGCAGCAGCTTCACCATTCACC
AAGGCTGACATGTAGGCAGCGTTTAGTGGGACTGGATAGTTCATACCCCC
AGCTGAAGCAATTGCATATCCTGGTGCAGCTGCATATTGTGCAGGCATAA
AGATTTGCTTTCCATCTGCACCAATAACAGCAGTTGGCATTGTAATTTTG
TGCTCAGTTTTCTTTggagcatttttgttttttctacgTGGCCTATACTT
ATAGTCCGGATGTGTTTTCATATGCTCAGCTCTCAAACGTTTGGCTTCAT
ACACGAAAGGTGCCTTCTCTTCCTCAGTTAAGACTTTCCACTCAGCTCCT
AATCGTTTACTAATTTCACTGTTATGCATTTTAGGGTTTTCTTGAGCAAG
CTTTCTACGTTTTTCTCTAGACCATACCATGAAAGAGTTCATTGGTCTCT
TAATTCTGTCAGGATCATCACCGGCTTTAGTTGGGTCCACAGATAATTCC
GTGGCAAAGGCATGCATGCTGTTGGAAATGTCTATTGCAGCATGATGTAC
ATTTGGGTCATAGGTAGTTGTCACCATAGAGTGAGTGGCAAAGTCTGTAT
CTGGTTTAATATGGTTGACATTTATCGTTTCAGTTGTGGTATGATGGGTA
GCAATGGCCCCAATTGTTGTAGCCATAGTTTTAATTCGATACAAATCAGG
AAATGTTCAACTTTCGATATGGCGAGACAAATAATAAATTACCGGGAAAT
CGCAATTAAAATCCGTTATTAATGTCTGGGACTGTTTACTCACAAATAAA
TGGTCAATGTTTCTCGTGGGGTACATGAACTGTTCGTATGTTGAATGTTC
TCATGTGTAGTGTTTTCCTTCACAGCgctttttatgatttccaaGAACTT
CTTGATGATCTTTTATTCAAAGTACACTAAAACCTCTtgttctgcaactc
ttttcaacAGAATAAAACAACAACACCGTAATAATTTCTCAATGAAAAAG
CGAATAATAGTCAGCTATTCACTAGTCGTCCTTCAACAACACAACTCGTT
CCCTTCGAACAAAATCGTAATGGGGTATATTGTCTAtgattagaaaaata
aaaggaTTTGATTGACAACCTgataaccaatcaaaatagaGAGCGCTTTA
TTTTCGTCACCAATCCTTTTTGatgatttgttgtttttctaGCGAATAGA
GAACTAGGAacaaatttaagatttttctatGCTGACGTCATGTTCACAGC
TACTTTAACACAATATTAAAAAGTCCAACAAAAGAATCACGA Coding sequence (CDS) from alignment at scaffold_167:1130481..1132572 >TCONS_00050178 ID=TCONS_00050178|Name=TCONS_00050178|organism=Clytia hemisphaerica|type=CDS|length=1209bp|location=Sequence derived from alignment at scaffold_167:1130481..1132572 (Clytia hemisphaerica)
TTAATGTTCACTGGCCGTCGTAGAATTTGGTGTACTCCTTGCTGGACTTC
CCGGATGACTACCAGTTGCAGCGACCCTTTCTTGAGCTACTGCCATTGTT
GCATAATGCATTTTAGGGTCAAAACCGATAGGATTACTATTTTGATCAAT
TGCAATAGGAACTGAATAAATGCCAGGATAATGGGCAGCAATTGATGCTG
CAGTTGCAAATGTTGTTCTACTGACTTCACCAGAAGTTTTCTCAGGTGAC
ACAGCACCTTCTTGTTTGACAGCAATAGTATGGGGATAGGCTGCAGCAGC
TTGAGGACTGTATGCTGCCGCTGCTCCACCAGCGATCGTTGCACCATAAG
GAAAGGAAAAGGGACTGTACATGTAGGTGGCAGCACCAGGAGGAAAAACG
CTGAATTGGGCAGCTGTCACCGCTGTTGGGGGAGCTGTAGATGCAACAAC
CGCAGTAGCAGCGGTTGTGGATGTCTGTGTTGTTTGTGCAGCAACTGTAG
TTGCGGCTACAGCAATTGCCGTACCAGGTGGGATGCCATACATTGCAGTC
CCAGCTGGATAGGCAGCAGCTTCACCATTCACCAAGGCTGACATGTAGGC
AGCGTTTAGTGGGACTGGATAGTTCATACCCCCAGCTGAAGCAATTGCAT
ATCCTGGTGCAGCTGCATATTGTGCAGGCATAAAGATTTGCTTTCCATCT
GCACCAATAACAGCAGTTGGCATTGTAATTTTGTGCTCAGTTTTCTTTgg
agcatttttgttttttctacgTGGCCTATACTTATAGTCCGGATGTGTTT
TCATATGCTCAGCTCTCAAACGTTTGGCTTCATACACGAAAGGTGCCTTC
TCTTCCTCAGTTAAGACTTTCCACTCAGCTCCTAATCGTTTACTAATTTC
ACTGTTATGCATTTTAGGGTTTTCTTGAGCAAGCTTTCTACGTTTTTCTC
TAGACCATACCATGAAAGAGTTCATTGGTCTCTTAATTCTGTCAGGATCA
TCACCGGCTTTAGTTGGGTCCACAGATAATTCCGTGGCAAAGGCATGCAT
GCTGTTGGAAATGTCTATTGCAGCATGATGTACATTTGGGTCATAGGTAG
TTGTCACCATAGAGTGAGTGGCAAAGTCTGTATCTGGTTTAATATGGTTG
ACATTTATCGTTTCAGTTGTGGTATGATGGGTAGCAATGGCCCCAATTGT
TGTAGCCAT
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_00050178-exon-scaffold_167-1491911889:1130481..1132572 | TCONS_00050178-exon-scaffold_167-1491911889:1130481..1132572 | Clytia hemisphaerica | exon |
| TCONS_00050178-exon-scaffold_167-1510915933:1130481..1132572 | TCONS_00050178-exon-scaffold_167-1510915933:1130481..1132572 | Clytia hemisphaerica | exon |
| TCONS_00050178-exon-scaffold_167-1575043694:1130481..1132572 | TCONS_00050178-exon-scaffold_167-1575043694:1130481..1132572 | Clytia hemisphaerica | exon |
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
|---|
| scaffold_167 | supercontig | scaffold_167:1130481..1132572 . |
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
| Term | Definition |
|---|
| IPR009071 | HMG_box_dom |
Blast
BLAST of TCONS_00050178 vs. Swiss-Prot (Human)
Match: SOX2 (Transcription factor SOX-2 OS=Homo sapiens GN=SOX2 PE=1 SV=1) HSP 1 Score: 130.954 bits (328), Expect = 3.668e-33 Identity = 57/72 (79.17%), Postives = 65/72 (90.28%), Query Frame = 2
Query: 824 DDPDRIKRPMNSFMVWSREKRRKLAQENPKMHNSEISKRLGAEWKVLTEEEKAPFVYEAKRLRAEHMKTHPD 1039
+ PDR+KRPMN+FMVWSR +RRK+AQENPKMHNSEISKRLGAEWK+L+E EK PF+ EAKRLRA HMK HPD
Sbjct: 36 NSPDRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLRALHMKEHPD 107
The following BLAST results are available for this feature:
|
