Sequence
atgc intronic sequence ATGC exonic sequenceAGATCAGCAGAGGGCTTTCTGCCAATTTGTAACTGGAGCTCCTAGGCTTCCTCCTGGTGGCTTAGCTGTTCTGAACCCAAAGCTTACGATTGTGAGAAAGgtaaaaaaactttaaatcatttgcaagtcatttttgtaatttagccaccaaggatatgttagaaggcatctatgtgtgggcaagggcttttgctcttttt...
Basic information
species | Arabidopsis thaliana |
transcript | AT4G38600.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G38600.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: LOC_Os02g01170.1 (Oryza sativa), 5'ss of exon 8
AGATCAGCAGAGGGCTTTCTGCCAATTTGTAACTGGAGCTCCTAGGCTTCCTCCTGGTGGCTTAGCTGTTCTGAACCCAAAGCTTACGATTGTGAGAAAGgtaaaaaaactttaaatcatttgcaagtcatttttgtaatttagccaccaaggatatgttagaaggcatctatgtgtgggcaagggcttttgctcttttt
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AGAGCAACAACATGCATTCTGCCAGTTTGTAACTGGTGCTCCTCGGCTTCCGCCTGGTGGTTTAGCTGCCCTTAATCCCAAGCTTACTATAGTTAGGAAGgtaacatt-cttggtatatcttattagcatgttataacgtatgaatattgtcgcctcattttgggtgatataactttg--ttgttgcttttgatcattag
upper sequence: AT4G38600.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA12G03640.1 (Glycine max), 5'ss of exon 15
AGATCAGCAGAGGGCTTTCTGCCAATTTGTAACTGGAGCTCCTAGGCTTCCTCCTGGTGGCTTAGCTGTTCTGAACCCAAAGCTTACGATTGTGAGAAAGgt----aaaaaaactttaaatcatttgcaagtcatttttgtaatttagccaccaaggatatgttagaaggcatctatgtgtgggcaagggcttttgctcttttt
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AGAGCAGCAGCGTGCCTTCTGTCAATTTGTTACTGGTGCACCTAGGCTGCCTCCTGGTGGACTGGCAGTTCTAAATCCAAAATTAACGATTGTGAGGAAGgtattgaaaaatatttttgatcacttgcaacctgtgttattcattcatgccttcatgcaattttgtacttgatatcttgaatgttaaagttttttggggg----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|47830638|gb|CK120322.1|CK120322EST: CTCCTGGTGNCTTAGCTGTTCTGAACCCAAAGCTTACGATTGTGAGAAAG CACTCATCGACCTCAAG
genomic: CTCCTGGTGGCTTAGCTGTTCTGAACCCAAAGCTTACGATTGTGAGAAAGgtaaaaaaac ... gctggtgcagCACTCATCGACCTCAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATCAGCAGAGGGCTTTCTGCCAATTTGTAACTGGAGCTCCTAGGCTTCCTCCTGGTGGCTTAGCTGTTCTGAACCCAAAGCTTACGATTGTGAGAAAGgtaaaaaaactttaaatcatttgcaagtcatttttgtaatttagccaccaaggatatgttagaaggcatctatgtgtgggcaagggcttttgctcttttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT