Sequence
atgc intronic sequence ATGC exonic sequence...ttcttctgcaacttaattacatagtaatgtatcttaatttaagcaatggtatatataattgaagcacaagattcttaatagtattgtaatggttgtgcagAAACAGCATGCGTTGGAGGGAAGGAGTGGTATTTCTACACACAAAGAGACCGTAAGTATGCAACAGGGTTACGCACAAATCGTGCCACTGCCTCAGGGTA
Basic information
species | Glycine max |
transcript | GLYMA08G18470.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G18470.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G56010.2 (Arabidopsis thaliana), 3'ss of exon 1
-----ttcttctgcaacttaattacatagtaatgtatcttaatttaagcaatggtatatataattgaagcacaagattcttaatagtattgtaatggttgtgcagAAACAGCATGCGTTGGAGGGAAGGAGTGGTATTTCTACACACAAAGAGACCGTAAGTATGCAACAGGGTTACGCACAAATCGTGCCACTGCCTCAGGGTA
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aaagttggcgctaacatttaatcacatgatcagtttcattatcct--gtagtgtataatacaactaa---gcgtgtttgtgtgtatgtttcaaacaaatgattagAAATGGCATGCGTGGGAGGGAAGGATTGGTATTTCTACAGCCAAAGAGACCGAAAATACGCGACGGGGCTGAGAACTAACCGAGCAACGGCCACCGGATAMapped 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|9819410|gb|BE554923.1|BE554923EST: TCTCTTGATAGATGTTGACCTTAACAAGTGTGAGCCATGGGATATTCCTG AAACAGCATGCGTTGGAGGGAAGGAGTGGTATTTCTACACACAAAGAGACC
genomic: TCTCTTGATAGATGTTGACCTTAACAAGTGTGAGCCATGGGATATTCCTGgtaagtaatg ... ggttgtgcagAAACAGCATGCGTTGGAGGGAAGGAGTGGTATTTCTACACACAAAGAGACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggtatatataattgaagcacaagattcttaatagtattgtaatggttgtgcagAAACAGCATGCGTTGGAGGGAAGGAGTGGTATTTCTACACACAAAGAGACCGTAAGTATGCAACAGGGTTACGCACAAATCGTGCCACTGCCTCAGGGTA
tcttaat putative branch site (score: 3)
ttaatagtattgtaat 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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttctgcaacttaattacatagtaatgtatcttaatttaagcaatggtatatataattgaagcacaagattcttaatagtattgtaatggttgtgcagAAACAGCATGCGTTGGAGGGAAGGAGTGGTATTTCTACACACAAAGAGACCGTAAGTATGCAACAGGGTTACGCACAAATCGTGCCACTGCCTCAGGGTA
- cttctgc
- - - - - - - - - - - - - - - - - - - - -agcaatg