Sequence
atgc intronic sequence ATGC exonic sequencegtattttccttcctttgaaccagaattacctttgtatagctcgattcaacaacttacgggacatttaacagctttctcatatgggtttacatgttttgattggtagATTGCTAAACTTCAAGACGACAATAAATCATTGGACCGCCTAACCAAATCAAAGGAAGCAGCTTTGCTTGACGCTGAAAGGACAGTTCAGTCTGCATTGG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G14840.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G14840.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os12g44340.1 (Oryza sativa), 3'ss of exon 4
----gtattttccttcctttgaaccagaattacctttgtatagctcgat-tcaacaacttacgggacatttaacagctttctcatatgggtttacatgttttgattggtagATTGCTAAACTTCAAGACGACAATAAATCATTGGACCGCCTAACCAAATCAAAGGAAGCAGCTTTGCTTGACGCTGAAAGGACAGTTCAGTCTGCATTGG
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cagaatatcaccattaattgttccctgcttattccatatttgattgagtgtcagctgctactgaaacacttaggac--------taaggcatta---gttttcttgcatagATCGCAAAACTACAAGATGACAACAGGGCATTGGACCGCCTTACTAAGTCCAAGGAAGCAGCTCTGCTGGAAGCAGAAAGGACGGTTCAGATAGCATTAG
upper sequence: AT1G14840.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 4
----gtattttcctt--cctttgaaccag-aattacctttgtatagctcgattcaacaacttacgggacatttaacagctttctcatatgggtttacatgttttgattggt---agATTGCTAAACTTCAAGACGACAATAAATCATTGGACCGCCTAACCAAATCAAAGGAAGCAGCTTTGCTTGACGCTGAAAGGACAGTTCAGTCTGCATTGG
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gtagttattgcatgtggcctttaaacttttaatgacgattctttctcaaagtaaaactcctcatag-atgataaatagtagttatatgattgtttggctgtattggttcttttcagATAGCAAAGCTGCAGGATGACAACAAAGCACTAGATCGCCTTACCAAATCAAAAGAAGCAGCTTTACTTGAAGCTGAGAGGACTGTTCAGGTTGCATTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttacgggacatttaacagctttctcatatgggtttacatgttttgattggtagATTGCTAAACTTCAAGACGACAATAAATCATTGGACCGCCTAACCAAATCAAAGGAAGCAGCTTTGCTTGACGCTGAAAGGACAGTTCAGTCTGCATTGG
acatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttccttcctttgaaccagaattacctttgtatagctcgattcaacaacttacgggacatttaacagctttctcatatgggtttacatgttttgattggtagATTGCTAAACTTCAAGACGACAATAAATCATTGGACCGCCTAACCAAATCAAAGGAAGCAGCTTTGCTTGACGCTGAAAGGACAGTTCAGTCTGCATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT