Sequence
atgc intronic sequence ATGC exonic sequenceTAGACCAATTCTTGTCCAAACTGAGAGCTTGTGCTAAAGCAGAGACATCCTTCACCTTCATTTTGGATGATCCTGCTGGAAACAGTTTCATTGAGAACCCgtaagtatattcaatttggaaatacctaaagatatggaagaagttatgtttcttttatttgtttatgacaagtttacaacatgacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22480.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22480.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G351582_T01 (Zea mays), 5'ss of exon 9
TAGACCAATTCTTGTCCAAACTGAGAGCTTGTGCTAAAGCAGAGACATCCTTCACCTTCATTTTGGATGATCCTGCTGGAAACAGTTTCATTGAGAACCCgtaagtatattcaatttggaaatacctaaagatatg-gaagaagttatgttt-------cttttatttgtttatgacaagtttacaacatgacag-------
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TCGATCAATTTTTACTGAAGTTGAGATCTCTTGGGTCAGGAGAGGCTGCATTCACTTTTATTCTTGATGATCCTGCAGGAAACAGCTTTATTGAGAATCCgtaagtttttt--gtgtgggtatacctcataatttatgtacttgttctgatatggaagacattgttctatgcatcataatgtaaatgtttgaactacttgga
upper sequence: AT5G22480.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G02690.1 (Glycine max), 5'ss of exon 8
TAGACCAATTCTTGTCCAAACTGAGAGCTTGTGCTAAAGCAGAGACATCCTTCACCTTCATTTTGGATGATCCTGCTGGAAACAGTTTCATTGAGAACCCgtaagt-atattcaatttggaaatacctaaagatatggaagaagttatgtttcttttatttgtttatgacaagtttacaacatgacag------------
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TTGATCAGTTCCTGGTGAAACTGCGAGCCTGTGCAAAAGGAGAATCAGCCTTCACATTTATTCTTGATGATCCTGCTGGAAACAGCTTCATTGAAAACCCgtaagagatcatacctcttttttctttttataataaataataagagtagttttattagagaagagattataaaaatagagggtaagatatcctcatataa
upper sequence: AT5G22480.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA07G34890.1 (Glycine max), 5'ss of exon 8
TAGACCAATTCTTGTCCAAACTGAGAGCTTGTGCTAAAGCAGAGACATCCTTCACCTTCATTTTGGATGATCCTGCTGGAAACAGTTTCATTGAGAACCCgtaagtatattcaatttggaaataccta-aagatatggaagaagttatgtttcttttatttgtttatgacaagtt-tacaacatgacag-----------
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TTGATCAGTTCCTGGTGAAACTGCGAGCCTGTGCAACAGGAGAATCAGCCTTCACATTTATTCTTGATGATCCTGCTGGAAACAGCTTCATTGAAAACCCgtaagagattataactcttttttatttttataataaatagtaagagtagttttattagagaagagattataagtaatatgtcctcatataagtaaatgac
upper sequence: AT5G22480.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv01s0011g01690.t01 (Vitis vinifera), 5'ss of exon 8
TAGACCAATTCTTGTCCAAACTGAGAGCTTGTGCTAAAGCAGAGACATCCTTCACCTTCATTTTGGATGATCCTGCTGGAAACAGTTTCATTGAGAACCCgtaagtatattcaatttggaaatacctaaagatatggaagaagttatgtttctt---ttat-ttgtttatgacaagtttacaac-atgacag------------
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TAGATCAGTTTTTGTTAAAATTGAAGCCTTGTGCAACAGGAGATTCATCTTTCACCTTCAACCTGGATGATCCTGCTGGCAACAGCTTCATTGAGAACCCgtaagagcattttttttt----ttttttaattggaagggaaacttttgccttttaacttgtgctgtcccttttaggtatatggttgagatagagtgttatttagMapped 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|125009053|gb|EL081322.1|EL081322EST: ATCCTGCTGGAAACAGTTTCATTGAGAACCC ACATGCTCCATCACCAGATCCCTCTCTAACCATCAAATTCTATGAGCGAAC
genomic: ATCCTGCTGGAAACAGTTTCATTGAGAACCCgtaagtatat ... aacatgacagACATGCTCCATCACCAGATCCCTCTCTAACCATCAAATTCTATGAGCGAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAGACCAATTCTTGTCCAAACTGAGAGCTTGTGCTAAAGCAGAGACATCCTTCACCTTCATTTTGGATGATCCTGCTGGAAACAGTTTCATTGAGAACCCgtaagtatattcaatttggaaatacctaaagatatggaagaagttatgtttcttttatttgtttatgacaagtttacaacatgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA