Sequence
atgc intronic sequence ATGC exonic sequencegtaatattctttaatatttccccccacataaaggcatgctattgtaatatgaaacatgttgattaatttcttttcactattatattaatctgagattataattcagttggtattttggtatttctttctttacagACAGCTTAAACATGAGGAAAAACAATGCATGGAAGAGCTGCAGTGCAACATCGTGGTTATGAAGCATTCCCAACCCAAGGTACTCCGCTTGAATTTGGTT
Basic information
species | Glycine max |
transcript | GLYMA15G02680.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G02680.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G142068_T01 (Zea mays), 3'ss of exon 3
gtaatattctttaatatttccccccacataaaggcatgctattgtaatatgaaacatgttgattaatttcttttcactattatattaatctgagattataattcagttggtattttggtatttctttctttacagACAGCTTAAACATGAGGAAAAACAATGCATGGAAGAGCTGCAGTGCAACATCGTGGTTATGAAGCATTCCCAACCCAAGGTACTCCGCTTGAATTTGGTT
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----------------------------------------gtaatggaaccacacatttt-atcagtctctcctcttggttcaactgctgcaaattcgtcttataataa------taatatttgttcat---cagGGAGCTGAAGCACGAGGAGAAGCGCTGCATGGAGGAGCTGCAGTGCAACATCGTGGCTATGAAGCGCTCCCAACCCAAAGTTCTTCGGCTGAACCTGGTG
upper sequence: GLYMA15G02680.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g02420.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------gtaat-attctttaatatt--tccccccacataaaggcatgctattgtaatatgaaaca--tgttgattaatttctt--ttcacta-ttatattaat-ctgagattataattcagttggtattttggtatttct-ttctttacagACAGCTTAAACATGAGGAAAAACAATGCATGGAAGAGCTGCAGTGCAACATCGTGGTTATGAAGCATTCCCAACCCAAGGTACTCCGCTTGAATTTGGTT
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gtaatatactctttctaatttttccataaaaatgtttttatttatttatttattttcatttccctcctgggaattcctttatttctctgtcaagctgttgtctattaatttcttggttcagcagttatgtccttattttcattactcttcccttggttaaaagttacttgtgttatgtgcagGCAGCTCAAACATGAGGAAAAATGCTGCATGGAGGAGCTGCAATGCAACATTGTGGTTATGAAGCGCTCCCAACCTAAAGTTCTCCGCTTGAATTTGGTTMapped 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|13311474|gb|BG405125.1|BG405125EST: GTGGCTGCGGAAGCCAAGAAATCCCAAGCCAATTGGGTCGTATTAGACAA ACAGCTTAAACATGAGGAAAAACAATGCATGGAAGAGCTGCAGTGCAACAT
genomic: GTGGCTGCGGAAGCCAAGAAATCCCAAGCCAATTGGGTCGTATTAGACAAgtaatattct ... ttctttacagACAGCTTAAACATGAGGAAAAACAATGCATGGAAGAGCTGCAGTGCAACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatattaatctgagattataattcagttggtattttggtatttctttctttacagACAGCTTAAACATGAGGAAAAACAATGCATGGAAGAGCTGCAGTGCAACATCGTGGTTATGAAGCATTCCCAACCCAAGGTACTCCGCTTGAATTTGGTT
tattaat putative branch site (score: 2)
tatttctttctttac putative PPT
attataattcagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatattctttaatatttccccccacataaaggcatgctattgtaatatgaaacatgttgattaatttcttttcactattatattaatctgagattataattcagttggtattttggtatttctttctttacagACAGCTTAAACATGAGGAAAAACAATGCATGGAAGAGCTGCAGTGCAACATCGTGGTTATGAAGCATTCCCAACCCAAGGTACTCCGCTTGAATTTGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC