Sequence
atgc intronic sequence ATGC exonic sequencegtaggaatagttctatgcattttgattgtcttcccctttctagatacctttggcaaataaaaacccattgaagtgatggcatggtaaaatgatatttcgtatgtgtatgtgggcatgtagGAGAACGTGACCAAAGATGATGCAAGACAACAATTTCTACGGATACTGAAGGCACTGCCATACGGGAATTCAGTTTTTTTTAGCGTACGCAAGATAGATG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G65930.3 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 9
gtaggaatagttctatgcattttgattgtcttcccctttctagatacctttggcaaataaaaacccattgaagtgatggcatggtaaaatgatatttcgtatgtgtatgtgg--gcatgtagGAGAACGTGACCAAAGATGATGCAAGACAACAATTTCTACGGATACTGAAGGCACTGCCATACGGGAATTCAGTTTTTTTTAGCGTACGCAAGATAGATG
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---------------tg-gtttttcttgtggtccttttttaaatgatct----caaaatttcatccataaagaagatg--atgacaatatttcttttgatttaattatgttgctgtatatagGAACATTTGACAAAAGATGATGCAAGACAACAATTTCTAAGGATCTTGAGAACACTGCCTTATGGGAATTCGGTTTTCTTTAGTGTTCGCAAGATTGATG
upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ06058 (Selaginella moellendorffii), 3'ss of exon 9
gtaggaatagttctatgcattttgattgtcttcccctttctagatacctttggcaaataaaaacccattgaagtgatggcatggtaaaatgatatt-tcgtatgtgtatgtgggcatgtagGAGAACGTGACCAAAGATGATGCAAGACAACAATTTCTACGGATACTGAAGGCACTGCCATACGGGAATTCAGTTTTTTTTAGCGTACGCAAGATAGATG
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--------------------------------------------------------------------gtgagtgtttgctttctaggttaagattcttacttttttgttcttatctgaagGGTCATTTATCGAAAGATGATGCAAGACAACAATTGCTACGTATTTTACGATCCTTGCCATATGGCCAATCCATATTTTTCAACGTCCGGAAGATAGAAG
upper sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ30174 (Selaginella moellendorffii), 3'ss of exon 9
gtaggaatagttctatgcattttgattgtcttcccctttctagatacctttggcaaataaaaacccattgaagtgatggcatggtaaaatgatatt-tcgtatgtgtatgtgggcatgtagGAGAACGTGACCAAAGATGATGCAAGACAACAATTTCTACGGATACTGAAGGCACTGCCATACGGGAATTCAGTTTTTTTTAGCGTACGCAAGATAGATG
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--------------------------------------------------------------------gtgagtgtttgctttctaggttaagattcttacatttttgttcttatctgaagGGTCATTTATCGAAAGATGATGCAAGACAACAATTGCTACGTATTTTACGATCCTTGCCATATGGCCAATCCATATTTTTCAACGTCCGGAAGATAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattgaagtgatggcatggtaaaatgatatttcgtatgtgtatgtgggcatgtagGAGAACGTGACCAAAGATGATGCAAGACAACAATTTCTACGGATACTGAAGGCACTGCCATACGGGAATTCAGTTTTTTTTAGCGTACGCAAGATAGATG
taaaatgatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggaatagttctatgcattttgattgtcttcccctttctagatacctttggcaaataaaaacccattgaagtgatggcatggtaaaatgatatttcgtatgtgtatgtgggcatgtagGAGAACGTGACCAAAGATGATGCAAGACAACAATTTCTACGGATACTGAAGGCACTGCCATACGGGAATTCAGTTTTTTTTAGCGTACGCAAGATAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA