Sequence
atgc intronic sequence ATGC exonic sequence...gaatatgattttactgattttaatattcaatttcttcttcataaatcataatcctaatatttatctacatggctcgtatttacctctttgggatttgcagCCTGTAGGGGTTGTAGGTGCAATTACACCTTGGAACTTTCCCCTTGCTATGATTACTCGAAAG
Basic information
species | Glycine max |
transcript | GLYMA08G17450.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0085g00880.t01 (Vitis vinifera), 3'ss of exon 6
---gaatatgattttactgatttt---aatattcaatttcttcttcataaatcataatcctaatatttatctacatggctcgtatttacctctttgggatttgcagCCTGTAGGGGTTGTAGGTGCAATTACACCTTGGAACTTTCCCCTTGCTATGATTACTCGAAAG
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tctagctatggcttcattagacttcccaatatt-ggtcattctcttgcaattctcttgttttctgttgcttaccatag---gcttttgaatctttct--tttgcagCCTGTAGGTGTTGTTGGTGCAATTACTCCTTGGAACTTTCCATTGGCTATGATCACACGGAAG
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0085g00870.t01 (Vitis vinifera), 3'ss of exon 5
gaatatgattttactgattttaatattcaatttcttct-tcataaatcataatcctaatatttatctacatggc-tcgtatttacctctt----tgggatttgcagCCTGTAGGGGTTGTAGGTGCAATTACACCTTGGAACTTTCCCCTTGCTATGATTACTCGAAAG
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----gttcttgcaatggcttcatta--aaattcccgatgccaatcattgtcacgcaatttcttacttcctaatcattaccatggccttttcaaatgtgttttgcagCCTGTTGGTGTTGTTGGTGCAATTACTCCATGGAACTTTCCGTTGGCTATGCTTACTTCGAAG
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S279_72V6.3 (Physcomitrella patens), 3'ss of exon 5
-gaatatgattttactgattttaatattcaatttcttcttcataaatcataatcctaatatttatctacatggctcgtattta-cctctttgggatttgcagCCTGTAGGGGTTGTAGGTGCAATTACACCTTGGAACTTTCCCCTTGCTATGATTACTCGAAAG
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catatacaattgtgct--ttcgcctaaaaaaaactttacacatccttgaaatggccaggggcaagcgttgaggttaagctctaacctctgtttggttggcagGCAGTTGGGGTTGTAGGTGCTATCACACCATGGAATTTTCCGCTTGCTATGATTACTCGAAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|16278230|gb|BI942795.1|BI942795EST: ATATAGTTCCTGCACCTTTTTCTGATCGGCGATTATTTGTTCTAAAGCAG CCTGTAGGGGTTGTAGGTGCAATTACACCTTGGAACTTTCCCCTTGCTATG
genomic: ATATAGTTCCTGCACCTTTTTCTGATCGGCGATTATTTGTTCTAAAGCAGgtaaacttgg ... ggatttgcagCCTGTAGGGGTTGTAGGTGCAATTACACCTTGGAACTTTCCCCTTGCTATG
EST:
gi|193437007|gb|FK402944.1|FK402944EST: ATATAGTTCCTGCACC-TTTTCTGATCGGCGATTA-TTGTTCT-AAGCAG CCTGTAGGGGTTGTAGGTGCAATTTACACCTTGGAACTTTCCCCTTGCTAT
genomic: ATATAGTTCCTGCACCTTTTTCTGATCGGCGATTATTTGTTCTAAAGCAGgtaaacttgg ... ggatttgcagCCTGTAGGGGTTGTAGGTGCAA-TTACACCTTGGAACTTTCCCCTTGCTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcataatcctaatatttatctacatggctcgtatttacctctttgggatttgcagCCTGTAGGGGTTGTAGGTGCAATTACACCTTGGAACTTTCCCCTTGCTATGATTACTCGAAAG
tcctaat putative branch site (score: 2)
taatatttatctacat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
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gaatatgattttactgattttaatattcaatttcttcttcataaatcataatcctaatatttatctacatggctcgtatttacctctttgggatttgcagCCTGTAGGGGTTGTAGGTGCAATTACACCTTGGAACTTTCCCCTTGCTATGATTACTCGAAAG
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