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Sequence
The following sequences are available for this feature:
transcript sequence >TCONS_00024608 ID=TCONS_00024608|Name=TCONS_00024608|organism=Clytia hemisphaerica|type=transcript|length=1696bp
CCTTCTTCTCATTGCTGAGCTTTGTATCGTTTGCCACATATTGTTGACCG
GAAGCAAGTAACCCCTCAATCACCGGATGTCTACCATCTTGAATTTCAAT
GCAATCAGAATCATCTATGATTGGACAACAATAACCAGGTTGCTTAGCAA
CGATTGATAATGATATTAAACAATCAAAGATGGCAACTTTCTCAATAGCG
CGTTTACACGCCTCGTAATGCAAGTATGAAAATGAGTCTAGGAATGAAAT
CCAGGCTTCATTTGAGCTTATCGATAATTCTTCACGAGCTCGACAGAGTT
TCTTGAAATGTTCGTCTACGAAAGGTGGTCTGAACCGAGTGACTTGTTTG
GTTGCACTGATTTTAATCCAATCAGAAGAGATCGACTTAACTTCATTGTT
CTTGACTTCAACAAGATATTCCAAACCGGAGACGCATTTATATTCAACAG
AGAGTTTGTTTAATGCTCTGGGCAATCGAGAACGTCTATATTCTTCAAGT
TTTGACTCGATGGATTTGATCTCGTTTTTGGCTTTGAGCACCTCAGGATA
ATCGAGTTCAGGCTGTTTGAAAacgttgtttttgttgtttctatCAGCCT
CTGTTCTGTTTAGTTTATTCAACGAGGCATCCAACCTAGTTCCAAGATGT
TGCGGAATTTGAGAAGATAATTCGCGAAGAAGTTTCGATTTAGTTTTCGA
AGAGATTTCCTCACTgtatttgaaaaacaaagttCGAAGTTTCTCAAGCT
CACTcacaattttgataaatttcgaAGGACTGGCTTTCTTTAGTGAGATA
ATAGTTAACCCGTTTTCAAGATCAATTGAACCAGCTAAACCACGTCGTAA
GCTTTTCATGTAATCCGATTCCCAGTTTTCAACCATTTCTGTTATCCCGA
TTAACCGATCTTGGATTTCGTCTTTAGACAATAAAGGATTGGCTATCCAT
CTTCTTAACAAACGCCTCCCGAAAGGAGTGTATGTATGATTAAGCACGGA
GAACAATGAACCACGCACTCCTCCGTCCGTGTTATTCTCGAAGATCTCaa
gattacgtaatgttatTCCATCCAATACCATGCTTTGATTTATGGTTCTa
aatttccgaaaattttcACTCGATTTCAGTATGCCGTCCAACTTGAATTG
AGATAAATACGATTCGAGTTGGCAAGCACACGATAATAATGATTGAGTAT
TAAATTCAGGATCTAGTCTCTTTAAACTTTCTTTGGTGACATTCGTGAAT
GGACTTTCAATCAATCGTTCAGTCCGTACACCTTCGATACTGTTACTGAC
ATATCTGGCAATAAAGGTCTCAACAGATTCGTCCAACGAAGACTTTGGCA
ACACTAACTCACATGGTTTCAAACAGCTGAATATAGTTTCCAAAGCCACT
GACAAATCACTTATAGATTTGGTTGAGAATTGCTCGCATACAACTTCACT
TGTAGTAGGGTTGACTGCGATGAAATTGAAGCAGCTTTTCTTTGATTGGT
TAATGGCGAGGATATAAGAAGGATTTGCTTTTCCGCCATCGTGATTCATT
TCTATGATGAAAAGATGATGATTATAAATGGGAATTTCATGTTGACATct
cagaccatgttcagacgttacggtttcgtgTTGCTCCGGTATTGTTTCCG
TTATGGATCGAGAGTGTctatattggtttcggaacgttttggAGAA Run BLAST on NCBI transcript from alignment at sc0000504:241828..243580- Legend: exon Hold the cursor over a type above to highlight its positions in the sequence below. >TCONS_00024608 ID=TCONS_00024608|Name=TCONS_00024608|organism=Clytia hemisphaerica|type=transcript|length=1753bp|location=Sequence derived from alignment at sc0000504:241828..243580- (Clytia hemisphaerica)
CCTTCTTCTCATTGCTGAGCTTTGTATCGTTTGCCACATATTGTTGACCG
GAAGCAAGTAACCCCTCAATCACCGGATGTCTACCATCTTGAATTTCAAT
GCAATCAGAATCATCTATGATTGGACAACAATAACCAGGTTGCTTAGCAA
CGATTGATAATGATATTAAACAATCAAAGATGGCAACTTTCTCAATAGCG
CGTTTACACGCCTCGTAATGCAAGTATGAAAATGAGTCTAGGAATGAAAT
CCAGGCTTCATTTGAGCTTATCNAATGCAAGTATGAAAATGAGTCTAGGA
ATGAAATCCAGGCTTCATTTGAGCTTATCGATAATTCTTCACGAGCTCGA
CAGAGTTTCTTGAAATGTTCGTCTACGAAAGGTGGTCTGAACCGAGTGAC
TTGTTTGGTTGCACTGATTTTAATCCAATCAGAAGAGATCGACTTAACTT
CATTGTTCTTGACTTCAACAAGATATTCCAAACCGGAGACGCATTTATAT
TCAACAGAGAGTTTGTTTAATGCTCTGGGCAATCGAGAACGTCTATATTC
TTCAAGTTTTGACTCGATGGATTTGATCTCGTTTTTGGCTTTGAGCACCT
CAGGATAATCGAGTTCAGGCTGTTTGAAAACGTTGTTTTTGTTGTTTCTA
TCAGCCTCTGTTCTGTTTAGTTTATTCAACGAGGCATCCAACCTAGTTCC
AAGATGTTGCGGAATTTGAGAAGATAATTCGCGAAGAAGTTTCGATTTAG
TTTTCGAAGAGATTTCCTCACTGTATTTGAAAAACAAAGTTCGAAGTTTC
TCAAGCTCACTCACAATTTTGATAAATTTCGAAGGACTGGCTTTCTTTAG
TGAGATAATAGTTAACCCGTTTTCAAGATCAATTGAACCAGCTAAACCAC
GTCGTAAGCTTTTCATGTAATCCGATTCCCAGTTTTCAACCATTTCTGTT
ATCCCGATTAACCGATCTTGGATTTCGTCTTTAGACAATAAAGGATTGGC
TATCCATCTTCTTAACAAACGCCTCCCGAAAGGAGTGTATGTATGATTAA
GCACGGAGAACAATGAACCACGCACTCCTCCGTCCGTGTTATTCTCGAAG
ATCTCAAGATTACGTAATGTTATTCCATCCAATACCATGCTTTGATTTAT
GGTTCTAAATTTCCGAAAATTTTCACTCGATTTCAGTATGCCGTCCAACT
TGAATTGAGATAAATACGATTCGAGTTGGCAAGCACACGATAATAATGAT
TGAGTATTAAATTCAGGATCTAGTCTCTTTAAACTTTCTTTGGTGACATT
CGTGAATGGACTTTCAATCAATCGTTCAGTCCGTACACCTTCGATACTGT
TACTGACATATCTGGCAATAAAGGTCTCAACAGATTCGTCCAACGAAGAC
TTTGGCAACACTAACTCACATGGTTTCAAACAGCTGAATATAGTTTCCAA
AGCCACTGACAAATCACTTATAGATTTGGTTGAGAATTGCTCGCATACAA
CTTCACTTGTAGTAGGGTTGACTGCGATGAAATTGAAGCAGCTTTTCTTT
GATTGGTTAATGGCGAGGATATAAGAAGGATTTGCTTTTCCGCCATCGTG
ATTCATTTCTATGATGAAAAGATGATGATTATAAATGGGAATTTCATGTT
GACATCTCAGACCATGTTCAGACGTTACGGTTTCGTGTTGCTCCGGTATT
GTTTCCGTTATGGATCGAGAGTGTCTATATTGGTTTCGGAACGTTTTGGA
GAA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
The following exon feature(s) are a part of this transcript:
| Feature Name | Unique Name | Species | Type |
|---|
| TCONS_00024608-exon-sc0000504-1575043694:243327..243580 | TCONS_00024608-exon-sc0000504-1575043694:243327..243580 | Clytia hemisphaerica | exon |
| TCONS_00024608-exon-sc0000504-1575043694:241828..243269 | TCONS_00024608-exon-sc0000504-1575043694:241828..243269 | Clytia hemisphaerica | exon |
| TCONS_00024608-exon-sc0000504-1510915933:243327..243580 | TCONS_00024608-exon-sc0000504-1510915933:243327..243580 | Clytia hemisphaerica | exon |
| TCONS_00024608-exon-sc0000504-1510915933:241828..243269 | TCONS_00024608-exon-sc0000504-1510915933:241828..243269 | Clytia hemisphaerica | exon |
| TCONS_00024608-exon-sc0000504-1491911889:243327..243580 | TCONS_00024608-exon-sc0000504-1491911889:243327..243580 | Clytia hemisphaerica | exon |
| TCONS_00024608-exon-sc0000504-1491911889:241828..243269 | TCONS_00024608-exon-sc0000504-1491911889:241828..243269 | Clytia hemisphaerica | exon |
Position
The following features are aligned
| Aligned Feature | Feature Type | Alignment Location |
|---|
| sc0000504 | supercontig | sc0000504:241828..243580 - |
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
| Term | Definition |
|---|
| IPR007696 | DNA_mismatch_repair_MutS_core |
| IPR007860 | DNA_mmatch_repair_MutS_con_dom |
Vocabulary: Molecular Function
| Term | Definition |
|---|
| GO:0030983 | mismatched DNA binding |
| GO:0005524 | ATP binding |
Vocabulary: Biological Process
| Term | Definition |
|---|
| GO:0006298 | mismatch repair |
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
| Category |
Term Accession |
Term Name |
| biological_process |
GO:0006298 |
mismatch repair |
| molecular_function |
GO:0005524 |
ATP binding |
| molecular_function |
GO:0030983 |
mismatched DNA binding |
Blast
BLAST of TCONS_00024608 vs. Swiss-Prot (Human)
Match: MSH3 (DNA mismatch repair protein Msh3 OS=Homo sapiens GN=MSH3 PE=1 SV=4) HSP 1 Score: 283.493 bits (724), Expect = 3.012e-83 Identity = 184/532 (34.59%), Postives = 285/532 (53.57%), Query Frame = -1
Query: 8 SYILAINQSKKSC---------FNFIAVNPTTSEVVCEQFSTKSISDLSVALETIFSCLKPCELVLPKSSLDESVETFIARYVSNSIEG--VRTERL------IESPFTNVTKESLKRLDPEFNTQSLLSCACQLES-----------YLSQFKLDGILKSSENFRKFRTINQSMVLDGITLRNLEIFENNTDGGVRGSLFSVLNHTYTPFGRRLLRRWIANPLLSKDEIQDRLIGITEMVENWESDYMKSLRRGLAGSIDLENGLTIISLKKASPSKFIKIVSELEKLRTLFFKYSEEISSKTKSKLLRELSSQIPQHLGTRLDASLNKLNRTEADRNNKNNVFKQPELDYPEVLKAKNEIKSIESKLEEYRRSRLPRALNKLSVEYKCVSGLEYLVEVKNNEVKSISSDWIKISATKQVTRFRPPFVDEHFKKLCRAREELSISSNEAWISFLDSFSYLHYEACKRAIEKVAIFDCLISLSIVAKQPGYCCPIIDDSDCIEIQDGRHPVIEGLLASGQQYVANDTKLSNE 1519
SY+L I+++K++ + V P T EVV + F + LET S L+P EL+LP S+L E E I R S S++ +R ER+ F VT E + + ++S LE YL +F L+ +L ENF++ + + M ++G TLRNLEI +N TD +GSL VL+HT T FGRR L++W+ PLL EI RL ++E++ + ES + L D+E GL I KK S +F IV L L++ F ++S +S LLR + +IP+ L + ++ L LN A +K +FK D+P + K K+EI+ + ++ + + + + L S +Y VSG E+++E+KN+ V I +DW+K+ +TK V+RF PF+ E+++ L + RE+L + + W+ FL+ FS HY + +A+ +A DC+ SL+ VAKQ YC P + + I I++GRHPVI+ LL QYV N+T LS +
Sbjct: 366 SYLLCISENKENVRDKKKGNIFIGIVGVQPATGEVVFDSFQDSASRS---ELETRMSSLQPVELLLP-SALSEQTEALIHRATSVSVQDDRIRVERMDNIYFEYSHAFQAVT-EFYAKDTVDIKGSQIISGIVNLEKPVICSLAAIIKYLKEFNLEKMLSKPENFKQLSSKMEFMTINGTTLRNLEILQNQTDMKTKGSLLWVLDHTKTSFGRRKLKKWVTQPLLKLREINARLDAVSEVLHS-ESSVFGQIENHLRKLPDIERGLCSIYHKKCSTQEFFLIVKTLYHLKSEFQAIIPAVNSHIQSDLLRTVILEIPELL-SPVEHYLKILNEQAAKVGDKTELFKDLS-DFPLIKKRKDEIQGVIDEIRMHLQ-EIRKILKNPSAQYVTVSGQEFMIEIKNSAVSCIPTDWVKVGSTKAVSRFHSPFIVENYRHLNQLREQLVLDCSAEWLDFLEKFSE-HYHSLCKAVHHLATVDCIFSLAKVAKQGDYCRPTVQEERKIVIKNGRHPVIDVLLGEQDQYVPNNTDLSED 887
The following BLAST results are available for this feature:
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