Sequence
atgc intronic sequence ATGC exonic sequenceTGCCATTAAAGCTGGTCCTTGTAGCTTGCCAGGGGCCCGACCCGGAGGTTTTGGGGGTCAGGTTATTCTTCCACTAGCCCACACAATTGAGCATGAAGAGgcaagttatttggtcctaattaaacacatacttttttggccttcaatttttgaattaacattcttgtggttttatcttgagtgtttattgcttacttgctgacatttgatctctaaaacag
Basic information
species | Glycine max |
transcript | GLYMA04G09000.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G09000.1 (Glycine max), 5'ss of exon 9
lower sequence: AT4G32880.1 (Arabidopsis thaliana), 5'ss of exon 13
TGCCATTAAAGCTGGTCCTTGTAGCTTGCCAGGGGCCCGACCCGGAGGTTTTGGGGGTCAGGTTATTCTTCCACTAGCCCACACAATTGAGCATGAAGAGgcaagttatttggtcctaattaaacacatacttttttggccttcaatttttgaattaacattcttgtggttttatcttgagtgtttattgcttacttgctgacatttgatctctaaaacag
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AGCCATCAAAGCAGGCCCTTGTAGCTTACCAATCCCTCGCCCAGGGAGCTTTGGTGGTCAAGTCATTCTTCCTCTAGCTCACACTATAGAGAATGAAGAGgcaagt------actctactaagaga------ttctcaaagtcaaatcaatgtaactacgtttttgaa---taaactaagtaaactaatgccctttta-tgtcctctgttttccag-----
upper sequence: GLYMA04G09000.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv04s0008g03250.t01 (Vitis vinifera), 5'ss of exon 12
TGCCATTAAAGCTGGTCCTTGTAGCTTGCCAGGGGCCCGACCCGGAGGTTTTGGGGGTCAGGTTATTCTTCCACTAGCCCACACAATTGAGCATGAAGAGgcaagttatttggtcct--aattaaacacatacttttttggccttcaatttttgaattaacattcttgtggttttatcttgagtgtttattgcttacttgctgacatttgatctctaaaacag
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----GTTAAAGCTGGCCCCTGTACCTTACCAGTGTCTCGAGCTGGAGGTTATGGGGGTCAGGTCATTCTCCCACTGGCTCACACTATTGAGCATGAAGAGGCAAgtgactttttctatgagtttctagcaaataatattatctttc--ttttcacatgaaggttat-ggaaaaatatccttggaatatgctgcttg-ttaatgctgtatcag-----------Mapped 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|19934805|gb|BQ079835.1|BQ079835EST: TTGGGGGTCAGGTTATTCTTCCACTAGCCCACACAATTGAGCATGAAGAG TTCATGGAGGTTATCAAGCTTGAAAACATGGGCTATTATAGGGACGACATG
genomic: TTGGGGGTCAGGTTATTCTTCCACTAGCCCACACAATTGAGCATGAAGAGgcaagttatt ... tctaaaacagTTCATGGAGGTTATCAAGCTTGAAAACATGGGCTATTATAGGGACGACATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCCATTAAAGCTGGTCCTTGTAGCTTGCCAGGGGCCCGACCCGGAGGTTTTGGGGGTCAGGTTATTCTTCCACTAGCCCACACAATTGAGCATGAAGAGgcaagttatttggtcctaattaaacacatacttttttggccttcaatttttgaattaacattcttgtggttttatcttgagtgtttattgcttacttgctgacatttgatctctaaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA