Sequence
atgc intronic sequence ATGC exonic sequenceCAAAGGGTTTGGTTTTGTGAGATATAACACTCATGACGAGGCTGCTCTTGCTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGGgtatttgcttcagttaatgttacatagatctatctgttgttgcatctacgtagacaaccaaagtctgcttgtaattggtttttaccagtattcccctaaacccatttccttgtttctgtgatttattgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G54080.2 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G54080.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA07G04640.1 (Glycine max), 5'ss of exon 11
CAAAGGGTTTGGTTTTGTGAGATATAACACTCATGACGAGGCTGCTCTTGCTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGGgtatttgcttcagttaatgttacatagatctatctgttgttgcat-ctacgtagacaaccaaagtctgcttgtaattggtttttaccagtattcccctaaacccatttccttgtttctgtgatttattgcag
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TAAAGGGTTTGGTTTTGTGAGGTACAGTACTCATGCTGAAGCAGCTCTGGCTATTCAGATGGGGAACGCCCAGTCTCTTCTATGTGGAAAACCAATTAAGgtgtggatttcactgaacttttgatg-------ctgttgctacttgctgtgtaatttttgtatggtttgttgtgggtcatggtttttattgtt------gacatatttttctg-------------------
upper sequence: AT1G54080.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv09s0002g00880.t01 (Vitis vinifera), 5'ss of exon 11
CAAAGGGTTTGGTTTTGTGAGATATAACACTCATGACGAGGCTGCTCTTGCTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGGgtatttgcttcagttaatgttacatagatctatctgttgttgcatctacgtagacaaccaaagtctgcttgtaattggtttttaccagtattcccctaaacccatttccttgtttctgtgatttattgcag
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TAAGGGCTTTGGTTTTGTTAGATACAATACTCATGCTGAGGCTGCTCTGGCTATTCAGATGGGAAATACCCAGTCAATTCTGTGTGGCAAACCAATCAAGgtat-------gatttatgccttcctagtcaaactgt-gctactccaatggaatgatgacgcatacctttttatccaatcttgaataatagcagtcagatgttagtgg-----------------------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|125221401|gb|EL235486.1|EL235486EST: CTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGG TGTTCCTGGGGAAACAAACCAACTCCATCAGGCACAG
genomic: CTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGGgtatttgctt ... tttattgcagTGTTCCTGGGGAAACAAACCAACTCCATCAGGCACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAAGGGTTTGGTTTTGTGAGATATAACACTCATGACGAGGCTGCTCTTGCTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGGgtatttgcttcagttaatgttacatagatctatctgttgttgcatctacgtagacaaccaaagtctgcttgtaattggtttttaccagtattcccctaaacccatttccttgtttctgtgatttattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG