Sequence
atgc intronic sequence ATGC exonic sequenceTAAAAGCATCAGCCATGTTGTAATTACACTCAAGACAGTCAAAGGAACCAAACATCTGAAATTGGATCCCACTATCTATGATGCCTTGATTAAGGAAAAGgtcagttcttggcatgcgatgctatgctttggatgtggtattttcccctaagtttttgcttttcagtttgttccaaaacctgcttttcttttcacctttt...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22330.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G02170.1 (Glycine max), 5'ss of exon 4
TAAAAGCATCAGCCATGTTGTAATTACACTCAAGACAGTCAAAGGAACCAAACATCTGAAATTGGATCCCACTATCTATGATGCCTTGATTAAGGAAAAGgtcag-ttcttggcatgcgatgctat-gctttggatgtggtattttcccctaagtttttgcttttcagtttgttccaaaacctgcttttcttttcacctttt-------------------------------------------------------------------------------
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TAAAAGTATTAGCCATGTGATCATTGGTTTGAAAACAGTGAAAGGAACCAAGCAACTCAAGTTGGATCCCACCATATATGATGCCTTGATTAAGGAAAAGgtgaggtttctgaaattatttcctcttgttctttgtgtgcttctgtctttacaagttataaatttct-tttcttattattttttttttcttttttgtatgatgctgttttagttttaaagctgtgtgatatttgtgtcaacaaatgtgatgttttgatttgggatttctgccaatgtacag
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 4
TAAAAGCATCAGCCATGTTGTAATTACACTCAAGACAGTCAAAGGAACCAAACATCTGAAATTGGATCCCACTATCTATGATGCCTTGATTAAGGAAAAGgtcag------------ttcttggcatgcg-atgctatgctttggatgtggtattttcc----cctaagtttttgcttttcagtttgttccaaaacctgcttttcttttcacctttt-----------------------------------------------------------
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TAAAAGTATTAGCCATGTCATCATTGGATTGAAGACAGTGAAAGGAACAAAGCAACTCAAGTTGGATCCTACCATATATGATGCCTTGATTAAGGAAAAGgtgaggtctctaatttcctcttgttctgtgtgtgctccattgtgtaactaagatattgcaagttataaatttcttttctttattttgtatgaag--ctgttttagttttgaagttgtgtaatatttgtgtcaacaaatctgatgttatgattgggggatttttgccaacatgccag
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 5'ss of exon 4
TAAAAGCATCAGCCATGTTGTAATTACACTCAAGACAGTCAAAGGAACCAAACATCTGAAATTGGATCCCACTATCTATGATGCCTTGATTAAGGAAAAGgtcagttcttggcatgcgatgctatgctttggatgtggtattttcccctaagtttttgcttttcagtttg---ttccaaaacctgcttttcttttcacctttt
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AAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCTGAAATTGGACCCAACTATTTATGATGCTTTGATTAAGGAGAAGgtgaggtcttggattcttttccttttgtttgtttgtt-tatatccttaaaaattttaacctttttgttgaagcttttaaatgcaagttttgcatataggaa--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|116443983|gb|EG486575.1|EG486575EST: AACATCTGAAATTGGATCCCACTATCTATGATGCCTTGATTAAGGAAAAG GTAGCTGTAGGAGATGTAATCTATATCGAAGCAAACAGTGGAGCTGTCAAA
genomic: AACATCTGAAATTGGATCCCACTATCTATGATGCCTTGATTAAGGAAAAGgtcagttctt ... tgcctctcagGTAGCTGTAGGAGATGTAATCTATATCGAAGCAAACAGTGGAGCTGTCAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAAAGCATCAGCCATGTTGTAATTACACTCAAGACAGTCAAAGGAACCAAACATCTGAAATTGGATCCCACTATCTATGATGCCTTGATTAAGGAAAAGgtcagttcttggcatgcgatgctatgctttggatgtggtattttcccctaagtttttgcttttcagtttgttccaaaacctgcttttcttttcacctttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttttcac