Sequence
atgc intronic sequence ATGC exonic sequenceGTTTTAGAGATCCGTCCTGTGATTGACTGGGACAAAGGGAAAGCTGTGACATTTCTACTTGAATCACTCGgtagttaacaaaatccttctcatctatctgcttctgttctgaatcttggtttggtttggccattgactttaatacatttctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51460.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51460.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA09G36570.1 (Glycine max), 5'ss of exon 9
GTTTTAGAGATCCGTCCTGTGATTGACTGGGACAAAGGGAAAGCTGTGACATTTCTACTTGAATCACTCGgtagttaaca---aaatccttctcatctatctgcttctgttctgaatcttggt---ttggtttg--gccattgacttta-atacatt---tctcag
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GTTTTAGAGATCCGACCTGTGATTAACTGGGATAAGGGCAAAGCTGTCACGTTTCTACTTGAGTCACTTGgtgagttccgtttttgtttttttaatatggtttctttttttaatgatcacagtacattgttttgcagtaactgatattagacatattgttttttag
upper sequence: AT5G51460.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA06G47630.1 (Glycine max), 5'ss of exon 9
GTTTTAGAGATCCGTCCTGTGATTGACTGGGACAAAGGGAAAGCTGTGACATTTCTACTTGAATCACTCGgtagttaacaaaatccttctcatctatctgcttctgttctgaatcttggtttggtttggccattgactt-taatacatttctcag-----
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GTTTTAGAGGTTCGGCCAGTGATTGACTGGGATAAGGGAAAAGCTGTCACATTTCTACTTGAGTCACTTGgtgagtt-cattgtttatatttaatgattattttctttgaagatcagaatttgataatgcagtaaaatgacacgacacatctttatttag
upper sequence: AT5G51460.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA12G00790.1 (Glycine max), 5'ss of exon 9
GTTTTAGAGATCCGTCCTGTGATTGACTGGGACAAAGGGAAAGCTGTGACATTTCTACTTGAATCACTCGgt-agttaacaaaatccttctca-tctatctgcttctgttctgaatcttggtt---tggttt--ggccattgactttaat--acatttctcag
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GTTTTAGAGATCCGACCTGTGATTAACTGGGATAAGGGAAAAGCTGTCACGTTTTTACTTGAGTCACTTGgtgagttcattttttgttttttagtatagtttctttttttaatgatcacagttcattgttttacagtaactgacattaggcattgttttttag
upper sequence: AT5G51460.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv16s0022g00660.t01 (Vitis vinifera), 5'ss of exon 8
GTTTTAGAGATCCGTCCTGTGATTGACTGGGACAAAGGGAAAGCTGTGACATTTCTACTTGAATCACTCGgtagttaacaaaatccttctcatctatctgcttctgttctgaa--tcttggtttggtttggccattgactttaatacatttctcag--------------------------------------
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GTTTTAGAGGTCCGACCTGTGATTGACTGGGATAAGGGAAAAGCTGTTGAGTTTTTACTTGAGTCACTTGgtgagtagatttttggcttctttatgtgaacttcaacaccagactttttttttttttttgtcttttccttgtaaaacttcacttcctttttcatgaaatataatggtgaaaaaaatcattgtagMapped 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|47828165|gb|CK117849.1|CK117849EST: GATTGACTGGGACAAAGGGAAAGCTGTGACATTTCTACTTGAATCACTCG GCCTAAACAACTGTGAGGATGTTCTTCCAATCTATGTTGGGGATGATCGAA
genomic: GATTGACTGGGACAAAGGGAAAGCTGTGACATTTCTACTTGAATCACTCGgtagttaaca ... catttctcagGCCTAAACAACTGTGAGGATGTTCTTCCAATCTATGTTGGGGATGATCGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTTAGAGATCCGTCCTGTGATTGACTGGGACAAAGGGAAAGCTGTGACATTTCTACTTGAATCACTCGgtagttaacaaaatccttctcatctatctgcttctgttctgaatcttggtttggtttggccattgactttaatacatttctcag
- - - - - - - - - - - - - - - - - - - - AAGCTG