Sequence
atgc intronic sequence ATGC exonic sequenceCTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAGgtgaattttgaagcaaacaaattgtaacccgattatctttcatgttgtactcttcagacagactctgattttactggtctgaattttttggatattatag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11130.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G06340.2 (Glycine max), 5'ss of exon 3
CTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAGgtgaattttgaagcaaacaaattgtaacccgattatctttcatgttgtactcttcagacagactctgattttactggtc-tgaattttttggatattatag
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CCCAACTGCAAGGAACTACTCAAGATCACCTGCAAATATTTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaactatta---tgcacaag----gacacatatat-tgcaacatagtaggtccaatatggtaacatatattgttaatcatgcatag--------------
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 3
CTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAGgtgaattttgaagcaaacaaattgtaacccgattatctttcatgttgtactcttcagacagactctgattttactggtctgaattttttggatattatag
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CCCAACTGCAAGGGACTACTCAAGATCACCTACAAATATTTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaaccatt-acgcacaaggacacatatattgtaacataataggtc-caatattgtaacatatattgttaatcatgtatag-------------------
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 3
CTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAGgtga-----attttgaagcaaacaaattgtaacccgattatctttcatgttgtactcttcagacagactctgattttactggtctgaattttttggatattatag
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CTCAACTCCAAGGAACAACTCAAGATCACCTACAAATTTTTAACATTGAAATGAAAGCAAAGATGAAATCTTATCAGATGCCTGAGCAGgtaactgttatgctcgagtgtacaaacacta-ttaagtgatggttgacaatgaaaactctat-taatccttg--tggaatgctctaattttcatgtgcag-----
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 3
CTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAGgtgaattttg-----aagcaaacaaattgtaacccgattatctttcatgttgtactcttcagacagactctgattttactggtctgaattttttggatattatag
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CTCAACTCCAAGGAACAACTCAAGATCACCTACAAATTTTTAACATTGAAATGAAAGCAAAGATGAAATCTTATCAGATGCCCGAGCAGgtaactgttatgcacgagtatacaaacacta-ttaagcgatggttgatgatgaaaactctattaa---tccacgtggaatgctct-aatttcatgtgcag-----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|19877198|gb|AU238029.1|AU238029EST: TTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAG GTTGCTTTTTGGAAGTGGATCACACCTAAGATGCTGGGACTGGTCACACAA
genomic: TTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAGgtgaattttg ... gatattatagGTTGCTTTTTGGAAGTGGATCACACCTAAGATGCTGGGACTGGTCACACAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAGCAAAGGCAAAGTTGAAGTCACATCAGATGCCTGAGCAGgtgaattttgaagcaaacaaattgtaacccgattatctttcatgttgtactcttcagacagactctgattttactggtctgaattttttggatattatag
- - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG