Sequence
atgc intronic sequence ATGC exonic sequenceTCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCTGAGTTAGGCCATGGAAGTAATgtatgtgaaggttgctcaataagttggggtcattagttccacatgtaaattattatgcttttgccttgtcacttttaataatcccttccagactaattttcatag
Basic information
species | Glycine max |
transcript | GLYMA06G43840.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G014136_T01 (Zea mays), 5'ss of exon 2
TCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCTGAGTTAGGCCATGGAAGTAATgtatgtgaaggttgctcaataagttggggtcattagttccacatgtaaattattatgcttttgccttgtcacttttaataatcccttccagactaattttcatag
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TCTTGGAACAAAGCGCCACCATGACAAGTGGTTGGTTGCCACGGAAAATTATGATATCAAGGGTTGTTTTGCAATGACAGAACTAGGCCATGGAAGCAATgtacgtgcatagatttgggctaagcatactttttacggtataatctcactaactgtgctgattaagttctgttgctgtttctttgttacaaaag-----------
upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G06290.1 (Arabidopsis thaliana), 5'ss of exon 2
TCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCTGAGTTAGGCCATGGAAGTAATgtatgtgaaggttgctcaataa-gttggggtcattagttccacatgtaaattattatgcttttgccttgtcacttttaataatcccttccagactaattttcatag
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TTTTGGAACAAAGCGTCACCATGAAAAGTGGCTGAAGAACACCGAAGATTATGTTGTCAAGGGCTGTTTTGCTATGACTGAGCTAGGCCATGGAAGTAATgtaggcatattttcttgattgccattttttttctccatatgtcatggtgatc-ttccacatttatattg--agttctatttatttcttttgatatag---------
upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv12s0028g02660.t01 (Vitis vinifera), 5'ss of exon 2
TCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCTGAGTTAGGCCATGGAAGTAATgtatgtgaaggttgctcaataagttggggtcattagttccacatgtaaattattatgcttttgccttgtcacttttaataatcccttccagactaattttcatag-----
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TTTTGGAACCAAGCGTCATCATGACAAGTGGTTGAGAGACAGTGAGAATTATGTGATCAAAGGTTGCTTTGCAATGACAGAATTGGGGCATGGAAGTAATgtatgtgaaggttgtttgatcatttggttttgg-gccaccaggcctgtatgatgatgttctt-cattctccctgttgtttagttttcattggtt--ctttcatgggtcag
upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S149_61V6.1 (Physcomitrella patens), 5'ss of exon 2
TCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCTGAGTTAGGCCATGGAAGTAATgtatgtgaaggttgctcaataagttggggtcattagttccacatgtaaattattatgcttttgccttgtcacttttaataatcccttccagactaattttcatag-----------------------------------------------------------------------------------------
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TCTGGGGACCAAGCGCCATCACGACAAGTGGTTGGATCGTACTGAGGATTACCAAGTTCGAGGATGTTTTGCAATGAGCGAGCTCGGCCATGGCAGTAATgtaagtgttggaatttcctaaggtcttttttgttgtctcaaaac--tgattggtatgaagctga--aactaattctaattgataggtgtcaattaatctttagaaccgatagtttactacacgattgtttgattgtaggctttccttttagcatcgtgaaaagtggtctcagaatatagtgattttctgatcagMapped 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|192331590|gb|FK023437.1|FK023437EST: ATGATATCAAGGGTTGTTTTGCTATGTCTGAGTTAGGCCATGGAAGTAAT GTTCGAGGAATTGAAACAGTCACTACTTATGATTCAAACACCGGAGAATTT
genomic: ATGATATCAAGGGTTGTTTTGCTATGTCTGAGTTAGGCCATGGAAGTAATgtatgtgaag ... attttcatagGTTCGAGGAATTGAAACAGTCACTACTTATGATTCAAACACCGGAGAATTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCTGAGTTAGGCCATGGAAGTAATgtatgtgaaggttgctcaataagttggggtcattagttccacatgtaaattattatgcttttgccttgtcacttttaataatcccttccagactaattttcatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG