Sequence
atgc intronic sequence ATGC exonic sequencegtaagttaaagatctaaagttagatgggaaattgccgtgtgattgctatggaatgagaatgaagtgaataggtggttaactattatttgcagGTTCTTCAAAGGAAGACAGAGGAAGCAACAATGGCTACGAAAAGGCTAAAAGAATTGTTGGAGGCCCGCAAATCTTCTCCCCGTGATAACTCTG
Basic information
species | Glycine max |
transcript | GLYMA17G18540.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G18540.1 (Glycine max), 3'ss of exon 13
lower sequence: AT3G50240.1 (Arabidopsis thaliana), 3'ss of exon 16
gtaagttaaagatctaaagttagatgggaaattg---ccgtgtgattgctatggaatgagaatgaagtgaataggtggttaactattatttgcagGTTCTTCAAAGGAAGACAGAGGAAGCAACAATGGCTACGAAAAGGCTAAAAGAATTGTTGGAGGCCCGCAAATCTTCTCCCCGTGATAACTCTG
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----gtaaagattcttatgatataattgtcttttttcccgcttgagagaaacataa-gagtctcaagagaaaatgcatcttaatgtc--ttgcagGTTCTTCAGAGAAAAACAGAAGAAGCAGCAATGGCTACCAAAAGACTTAAAGAGCTGCTAGAAGCCCGCAAGTCTTCACCTCATGATATATCAG
upper sequence: GLYMA17G18540.1 (Glycine max), 3'ss of exon 13
lower sequence: EFJ26093 (Selaginella moellendorffii), 3'ss of exon 16
gtaagttaaagatctaaagttagatgggaaattgccgtgtgattgctatggaatgagaatgaagtgaataggtggttaactattatttgcagGTTCTTCAAAGGAAGACAGAGGAAGCAACAATGGCTACGAAAAGGCTAAAAGAATTGTTGGAGGCCCGCAAATCTTCTCCCCGTGATAACTCTG
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-----------------------------------------gtttcttttggtagttcgtaagttc--ttcgtgaaca-ctgttgttt-cagGTTCTTCAAAGGAAGACGGAGGAAGCTGCAATTGCTACACGGCGCCTGAAGGAGGTTTTGGAGTCTCGCAAGTTATCTGGACGGGAGGCAG---
upper sequence: GLYMA17G18540.1 (Glycine max), 3'ss of exon 13
lower sequence: EFJ10856 (Selaginella moellendorffii), 3'ss of exon 17
gtaagttaaagatctaaagttagatgggaaattgccgtgtgattgctatggaatgagaatgaagtgaataggtggttaactattatttgcagGTTCTTCAAAGGAAGACAGAGGAAGCAACAATGGCTACGAAAAGGCTAAAAGAATTGTTGGAGGCCCGCAAATCTTCTCCCCGTGATAACTCTG------
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-----------------------------------------gtttcttttggtagttcgtaagttc--ttcgtgaaca-ctgttgttt-cagGTTCTTCAAAGGAAGACGGAGGAAGCAGCAATTGCTACACGGCGCCTGAAGGAGGTTTTGGAGTCTCGCAAGTTATCTGGACGGGAGGCTGTTTTCTGTTMapped 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|254338075|gb|GR849707.1|GR849707EST: GAAAGACATAAGCTTGAGGCTCTAAACCAACGTCAGAAAATG GTTCTTCAAAGGAAGACAGAGGAAGCAACAATGGCTACGAAAAGGCTAAAA
genomic: GAAAGACATAAGCTTGAGGCTCTAAACCAACGTCAGAAAATGgtaagttaaa ... ttatttgcagGTTCTTCAAAGGAAGACAGAGGAAGCAACAATGGCTACGAAAAGGCTAAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgattgctatggaatgagaatgaagtgaataggtggttaactattatttgcagGTTCTTCAAAGGAAGACAGAGGAAGCAACAATGGCTACGAAAAGGCTAAAAGAATTGTTGGAGGCCCGCAAATCTTCTCCCCGTGATAACTCTG
ggttaac putative branch site (score: 3)
ttaactattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttaaagatctaaagttagatgggaaattgccgtgtgattgctatggaatgagaatgaagtgaataggtggttaactattatttgcagGTTCTTCAAAGGAAGACAGAGGAAGCAACAATGGCTACGAAAAGGCTAAAAGAATTGTTGGAGGCCCGCAAATCTTCTCCCCGTGATAACTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG