Sequence
atgc intronic sequence ATGC exonic sequenceTCCATTATATAAAGAAGTTACTAGAACCTCTGGCATTCTCACTGAAACAGCTTGGGCTGGAGCAGCATTCAATCTCTTTCTTTACATGCTAGCAAGTCATgtaagtttatgctgcaatctttttttttttcctttttcttgtgtacattactgagaataattttgtgttatattgctttctactaaatttattatttatt...
Basic information
species | Glycine max |
transcript | GLYMA06G13200.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G13200.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G53130.1 (Arabidopsis thaliana), 5'ss of exon 4
TCCATTATATAAAGAAGTTACTAGAACCTCTGGCATTCTCACTGAAACAGCTTGGGCTGGAGCAGCATTCAATCTCTTTCTTTACATGCTAGCAAGTCATgtaagtttatgctgcaatctttttttttttcct--ttttcttgtgtacattactgagaataattttgtgttatattgctttctactaaatttattatttatt
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TCCGCTCTACAAGGAAGTTACAAGAACTTCAGGCATACTCACTGAGACAGCTTGGGCTGGAGCTGCTTTCAATCTCTTCCTCTACATGCTTGCTAGTCATgtgagt----gccaaattggttctaactgtcccaacctttttagtttcagagtttagatatataatatttttggtcaatacctg-taaatgtgtag------
upper sequence: GLYMA06G13200.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv16s0050g02560.t01 (Vitis vinifera), 5'ss of exon 4
TCCATTATATAAAGAAGTTACTAGAACCTCTGGCATTCTCACTGAAACAGCTTGGGCTGGAGCAGCATTCAATCTCTTTCTTTACATGCTAGCAAGTCATgtaagtttatgctgcaatctttttttttttcctttttcttgtgtacattactgagaataattttgtgttatattgctttctactaaatttattatttatt----------
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TCCGTTATACAAAGAAGTCACAAGAACTTCTGGCATACTCACTGAAACTGCATGGGCTGGAGCTGCATTCAATCTCTTTCTTTACATGCTTGCGAGTCATgtgagtttg-------attacctgccattacattttttttgcaaacatatttggcaa--atgccatgttatgaaggcttaaatgtcattt-ttatatatagacatgtatg
upper sequence: GLYMA06G13200.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ37650 (Selaginella moellendorffii), 5'ss of exon 2
TCCATTATATAAAGAAGTTACTAGAACCTCTGGCATTCTCACTGAAACAGCTTGGGCTGGAGCAGCATTCAATCTCTTTCTTTACATGCTAGCAAGTCATgtaagtttatgctgcaatctttttttttttcctttttcttgtgtacattactgagaataattttgtgttatattgctttctactaaatttattatttatt
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TCCGTTAACAATGAAGATGGTCAAGAGCACTGGAATGGTGCTGGAGACTCCGTGGGCTGGAGCGGCATACAATCTTATACTTTTCATGCTCGCAAGTCATgtaagtctgtgtcgtgccgtctacatccatccaactt--taaggaaaccgttgttgtttattcag-----------------------------------
upper sequence: GLYMA06G13200.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ15042 (Selaginella moellendorffii), 5'ss of exon 2
TCCATTATATAAAGAAGTTACTAGAACCTCTGGCATTCTCACTGAAACAGCTTGGGCTGGAGCAGCATTCAATCTCTTTCTTTACATGCTAGCAAGTCATgtaagtttatgctgcaatctttttttttttcctttttcttgtgtacattactgagaataattttgtgttatattgctttctactaaatttattatttatt
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TCCGTTAACAATGAAGATGGTCAAGAGCACTGGAATGGTGCTGGAGACTCCGTGGGCTGGAGCGGCATACAATCTTATACTTTTCATGCTCGCAAGTCATgtaagtctgtgtcgtg--------------ccgtctacatccatccaactttaaggaaaccgttgttctttattgcag----------------------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|21675872|gb|BQ628223.1|BQ628223EST: CTTGGGCTGGAGCAGCATTCAATCTCTTTCTTTACATGCTAGCAAGTCAT GTTATTGGTGCCTTTTGGTACTTGTTTTCTATAGAAAGAGAAACCACATGC
genomic: CTTGGGCTGGAGCAGCATTCAATCTCTTTCTTTACATGCTAGCAAGTCATgtaagtttat ... ttgctcttagGTTATTGGTGCCTTTTGGTACTTGTTTTCTATAGAAAGAGAAACCACATGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCATTATATAAAGAAGTTACTAGAACCTCTGGCATTCTCACTGAAACAGCTTGGGCTGGAGCAGCATTCAATCTCTTTCTTTACATGCTAGCAAGTCATgtaagtttatgctgcaatctttttttttttcctttttcttgtgtacattactgagaataattttgtgttatattgctttctactaaatttattatttatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG