Sequence
atgc intronic sequence ATGC exonic sequenceGTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggtgtttcgattctcctgtctttctttcaatgtttcttaaattcatttacctggattgtaggtgcttccttgacttgaaatgtgaaattgacattttacttttattgtgaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13670.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 5'ss of exon 3
GTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggtgtttcgattctcct--gtctttctttcaatgtttcttaaattcatttacctggattgtaggtgcttccttgacttgaaatgtgaaattgacattt-tacttttattgtgaacag-----------------------
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GTAGCTTTGAAATTCGAGCACAGAAACAGCAAAGGCTGCAACTATGGCCCTCCATATGAGTGGCAGGTGTACAAgtatgtctgaggtttcttttcaaacaggatatgattatttgcaatctttattt-ctttcaaagaatgagagtctttgtcaaatcacccaaaccctacatttacaatttctatttaaaaatttgttttggttattgttaaacag
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggtgtt---tcgattc--tcctgtctttcttt-----caatgtttcttaaatt-------ca--tttacctggattgtaggtgct-tccttgacttgaaatgtgaaattgacattttacttttattgtgaacag---------------------------
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GTAGCTTTAAAGTTTGAACATCGGAGCAGCAAGGGTTGCAATTATGGTCCTCCTTACGAGTGGCAAGTTTACAAgtgcgtctcgaaccgactcagtcctttctatcctttgctacaatgtcattggaattgctgttccaattctagcctcatcgtggaggttatttttgtgctgtcgggttcaatcta-attaggtcataaatgttaatggtgatgataatccttggttgttgcgcag
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggtgtttcgattctcctgtctttctttca----------atgtttcttaaattc--atttacctggattgtaggtgcttccttgact-tgaaatgtgaaattgacattttacttttattgtgaacag---------------------
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GTTGCGTTGAAGTTCGAGCATCGGAGTAGTAAGGGCTGCAATTATGGTCCTCCTTATGAGTGGCAGGTTTACACgtgcgtctcaagcttgtaccattgtgatttcactcttgagatgtgattgctagtgtcgcatttacctct-ctgtatttcttattttcatcatcaaatgtga--ttagggcttgtctcctaaccttgatggctggcgcgggtctttctgcag
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ13521 (Selaginella moellendorffii), 5'ss of exon 3
GTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggtgtttcgattctcctgtctttctttcaatgtttcttaaattcatttacctggattgtaggtgcttccttgacttgaaatgtgaaattgacattttacttttattgtgaacag
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GTTGCTCTCAAGTTCGAGCATAGGAGCAGCAAAGGTTGCAACTACGGGCCTCCTTACGAATGGCAGGTTTACGAgtgagtagttctac-catgagtcttttctctatagtttctaagttttggttgatag-------------------------------------------------------------
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ19085 (Selaginella moellendorffii), 5'ss of exon 3
GTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggtgtttcgattctcctgtctttctttcaatgtttcttaaattcatttacctggattgtaggtgcttccttgacttgaaatgtgaaattgacattttacttttattgtgaacag
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GTTGCTCTCAAGTTCGAGCATAGGAGCAGCAAAGGTTGCAACTATGGGCCTCCTTACGAATGGCAGGTTTACGAgtgagtagttctac-catgagtcttttctctatagtttctaagttttggttgatag-------------------------------------------------------------
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
GTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggt-gtttcgattctcctgtctttctttcaatgtttcttaaattcatttacctggattgtaggtgcttccttgacttgaaatgtgaaattgacattttacttttattgtgaacag
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GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-----------------------------------------------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|86068919|gb|DR364676.1|DR364676EST: GCAGCCNAGGGTTGCA-CTATGGNCCTCCACATGAGTGGCAGGTTTACAA CACCTTTGGGTG
genomic: GCAGCA-AGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggtgttt ... ttgtgaacagCACCTT-GGGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggtgtttcgattctcctgtctttctttcaatgtttcttaaattcatttacctggattgtaggtgcttccttgacttgaaatgtgaaattgacattttacttttattgtgaacag
- - - - - - - - - - - - - AGCAAG