Sequence
atgc intronic sequence ATGC exonic sequence...aatttagctaatcaggataaatgaatctgtagccttatacttttgtaagtctaaagaagctttctcacatttacacattttgttcaaaatgtgtaatcagATCCACTTTTGGTTAAGGCTGCAAAAGGGCAAGCCATAAGTCGTCCTCCAGCTTGGATGATGAGGCAAGCAGGAAGGTATATGGCTGTTTACCAAAAGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14930.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14930.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G34500.1 (Glycine max), 3'ss of exon 2
-aatttagctaatcaggataaatgaatctgtagccttatacttttgtaagtctaaagaagctttctcacatttacacattttgttcaaaatgtg---taatcagATCCACTTTTGGTTAAGGCTGCAAAAGGGCAAGCCATAAGTCGTCCTCCAGCTTGGATGATGAGGCAAGCAGGAAGGTATATGGCTGTTTACCAAAAGCT
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tgctgccttcgttttttatctcttagt-tgcagac--atgtccctgcaaatatatagaaattgacttg-gttgctgtgtttggtttttattttaattttattagATCCACTGTTGGTTAAGGCTGCTAGGGGAGATCCTGTTAGTCGTCCTCCAGCATGGATGATGCGCCAGGCAGGAAGGTACATGGCTGTTTACAAAAATCT
upper sequence: AT3G14930.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA12G35880.2 (Glycine max), 3'ss of exon 2
-aatttagctaatcaggataaatgaatctgtagccttatacttttgtaagtctaaagaagctttctcacat---ttacacattttgttcaaaatgtgtaatcagATCCACTTTTGGTTAAGGCTGCAAAAGGGCAAGCCATAAGTCGTCCTCCAGCTTGGATGATGAGGCAAGCAGGAAGGTATATGGCTGTTTACCAAAAGCT
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ttatct-gctgcctttttttgtctcacatgcagac--atgtcactacaaatatacagaaattgacttgggtgctgtgttggtttttattttaattt-tattcagATCCACTATTGGTTAAGGCTGCTAGGGGGGATCCTGTTAGTCGTCCTCCGGCATGGATGATGCGCCAGGCCGGAAGGTACATGGCTGTTTACAAAAAGCTMapped 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|125186355|gb|EL201309.1|EL201309EST: TCCTCCTCCTCTTCCG ATCCACTTTTGGTTAAGGCTGCAAAAGGGCAAGCCATAAGTCGTCCTCCAG
genomic: TCCTCCTCCTCTTCCGgtacataatg ... gtgtaatcagATCCACTTTTGGTTAAGGCTGCAAAAGGGCAAGCCATAAGTCGTCCTCCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taagtctaaagaagctttctcacatttacacattttgttcaaaatgtgtaatcagATCCACTTTTGGTTAAGGCTGCAAAAGGGCAAGCCATAAGTCGTCCTCCAGCTTGGATGATGAGGCAAGCAGGAAGGTATATGGCTGTTTACCAAAAGCT
ttctcac putative branch site (score: 2)
attttgttcaaaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttagctaatcaggataaatgaatctgtagccttatacttttgtaagtctaaagaagctttctcacatttacacattttgttcaaaatgtgtaatcagATCCACTTTTGGTTAAGGCTGCAAAAGGGCAAGCCATAAGTCGTCCTCCAGCTTGGATGATGAGGCAAGCAGGAAGGTATATGGCTGTTTACCAAAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT