Sequence
atgc intronic sequence ATGC exonic sequencegttttacttcttatgatcccccaatcagtgtttttatttacaaaggcttaatctttggagctttgaaatgatataagtcaaagaattgaaagttctttgtttctagtgtgtcaagtgtaatactaattatatcttcactgtgacagAGAAAAACTGGTGGTTTGGTGATTTGGAGGTCAGGGACTTCCATCGCCTTGTACAATTACAAAGGTGGCAGCAACAGGGATGGATCAGGGAACATGAACA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14510.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14510.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA20G34730.1 (Glycine max), 3'ss of exon 1
gttttacttcttatgatcccccaatcagtgtttttatttacaaaggcttaatctttggagctttgaaatgatataagtcaaagaattgaaagttctttgtttctagtgtgtcaagtgtaatactaattatatcttcactgtgacagAGAAAAACTGGTGGTTTGGTGATTTGGAGGTCAGGGACTTCCATCGCCTTGTACAATTACAAAGGTGGCAGCAACAGGGATGGATCAGGGAACATGAACA------
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----------------------------------------tgtagattccat--ttggagctttccaatttttctttatatatctcctttgactatcagtaaccattgctatattcttgtttatttttaaaaccacatt----cagAGAAAAACTGGTGGTCTGGTGATTTGGAGGTCTGGCAACTCTGTTTCCTTATACAG------GGGTGTGAGCTACGAGGTTCCTTCAGTACAACAGAATAAAAAAA
upper sequence: AT4G14510.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv05s0020g04770.t01 (Vitis vinifera), 3'ss of exon 1
gttttacttcttatgatcccccaatcagtgtttttatttacaaaggcttaatctttggagctttgaaatgatataagtcaaagaattgaaagttctttgtttctagtgtgtcaagtgtaatactaattatatcttcactgtga-cagAGAAAAACTGGTGGTTTGGTGATTTGGAGGTCAGGGACTTCCATCGCCTTGTACAATTACAAAGGTGGCAGCAACAGGGATGGATCAGGGAACATGAACA---------
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---------------------caatacattaccctagtgaaaaagaatttggttgt------------taatatattccaataaatgg------ctttaatc---atctgt-aagt-tgattctgcct---tctccattatgttcagAGAAAAACTGGTGGTTTGGTGATATGGAGATCTGGCACTTCTGTTTCTCTATATA------GAGGTGTGAGCTATGAGGTT---CCAGTCCAACTGAACAAAAGGGTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttctttgtttctagtgtgtcaagtgtaatactaattatatcttcactgtgacagAGAAAAACTGGTGGTTTGGTGATTTGGAGGTCAGGGACTTCCATCGCCTTGTACAATTACAAAGGTGGCAGCAACAGGGATGGATCAGGGAACATGAACA
tactaat putative branch site (score: 1)
tcttcact putative PPT
taatactaattatatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttacttcttatgatcccccaatcagtgtttttatttacaaaggcttaatctttggagctttgaaatgatataagtcaaagaattgaaagttctttgtttctagtgtgtcaagtgtaatactaattatatcttcactgtgacagAGAAAAACTGGTGGTTTGGTGATTTGGAGGTCAGGGACTTCCATCGCCTTGTACAATTACAAAGGTGGCAGCAACAGGGATGGATCAGGGAACATGAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA