Sequence
atgc intronic sequence ATGC exonic sequencegtaaaggcaacatcactactgaattttcaaaacacagctgggtcaatcaaagtcatgcattactgatatacaagaaaacatgacaaatatttgcatccacgatcaataaatttactttgaagtgctttaaaagtattataaaaggcactaattgtatgtggtacttttatttatgggcagGGGGACTCATGTACAAGCTTCCTGAAAGCAACCTCCAGTATGTGACATCTATAACATTCTTGCTCACAACCTATTCAAAGTATATGTCAGCTAAAAAGCA
Basic information
species | Glycine max |
transcript | GLYMA06G48140.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G48140.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G71380.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaaggcaacatcactactgaattttcaaaacacagctgggtcaatcaaagtcatgcattactgatatacaagaaaacatgacaaatatttgcatccacgatcaataaatttactttgaagtgctttaaaagtatta-taaaaggcactaattgtatgtggtacttttatttatgggcagGGGGACTCATGTACAAGCTTCCTGAAAGCAACCTCCAGTATGTGACATCTATAACATTCTTGCTCACAACCTATTCAAAGTATATGTCAGCTAAAAAGCA
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----------------------------------------------------------------------------------------------------------gtaacctacttcacgatatagaacacaaattgctaaacaacaacctcttctaatcatatgtttaccaatta-cagGAGGATTAATGTACAAGCTACCTCAAAGCAATCTTCAGTACGTAACCTCCATAACATTCTTGCTCACAACTTACGCCAAATACATGAAAGCCACAAAACA
upper sequence: GLYMA06G48140.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G22880.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaaggcaacatcactactgaattttcaaaacacagctgggtcaatcaaagtcatgcattactgatatacaagaaaacatgacaaatatttgcatccacgatcaataaatttactttgaagtgcttt--aaaagtattataaaaggcactaattgtatgtggtacttttatttatgggcagGGGGACTCATGTACAAGCTTCCTGAAAGCAACCTCCAGTATGTGACATCTATAACATTCTTGCTCACAACCTATTCAAAGTATATGTCAGCTAAAAAGCA
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---------------------------------------------------------------------------------------------------------gtaaactcaacacagagttctctccaaaagcatt-tcaattactcaaatactaaaagctataacttt-------cagGTGGACTGATGTACAAACTACCTCAGAGCAATCTACAATACGTGACATCAATAACATTCTTGCTCACCACCTACGCCAAATATATGAAATCCACAAAACAMapped 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|21678193|gb|BQ630544.1|BQ630544EST: GTGCAAGATCCTTCCCAACTCTCCCTCTTCAAGTACACAATATACACAAG GGGGACTCATGTACAAGCTTCCTGAAAGCAACCTCCAGTATGTGACATCTA
genomic: GTGCAAGATCCTTCCCAACTCTCCCTCTTCAAGTACACAATATACACAAGgtaaaggcaa ... ttatgggcagGGGGACTCATGTACAAGCTTCCTGAAAGCAACCTCCAGTATGTGACATCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaaaagtattataaaaggcactaattgtatgtggtacttttatttatgggcagGGGGACTCATGTACAAGCTTCCTGAAAGCAACCTCCAGTATGTGACATCTATAACATTCTTGCTCACAACCTATTCAAAGTATATGTCAGCTAAAAAGCA
cactaat putative branch site (score: 2)
cttttattt putative PPT
aagtattataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaggcaacatcactactgaattttcaaaacacagctgggtcaatcaaagtcatgcattactgatatacaagaaaacatgacaaatatttgcatccacgatcaataaatttactttgaagtgctttaaaagtattataaaaggcactaattgtatgtggtacttttatttatgggcagGGGGACTCATGTACAAGCTTCCTGAAAGCAACCTCCAGTATGTGACATCTATAACATTCTTGCTCACAACCTATTCAAAGTATATGTCAGCTAAAAAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT