Sequence
atgc intronic sequence ATGC exonic sequence...cttgagtttgtttggctgttgtttctagaattaggttcttttttttaattttcccctcatgccactaatttgatttttggtgtgtttttatgttgtgcagCTATGAGTGTAAACTATGTCTAACACTGCATAACAATGAAGGAAACTACTTGGCACATACTCAAGGTAAGAGGCATCAGACAAACTTGGCAAAGAGAGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G32600.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G32600.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv08s0007g04710.t01 (Vitis vinifera), 3'ss of exon 1
-----cttgagtttgtttggctgttgtttctagaattaggttcttttt-tttaattttcccctcatgccactaatttgatttttggtgtgtttttatgttgtgcagCTATGAGTGTAAACTATGTCTAACACTGCATAACAATGAAGGAAACTACTTGGCACATACTCAAGGTAAGAGGCATCAGACAAACTTGGCAAAGAGAGCT
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cagaaaataaccctatatatatatactccattctatttggatctcgctattttattttatttttttg----tgattttattttta-tgtgattgggcaat-tacagCTATGAGTGTAAGCTTTGCCTGACATTGCACAACAACGAGGGCAATTATTTGGCCCACACACAAGGGAAGAGGCATCAGACGAATTTGGCCAAGAGAGCT
upper sequence: AT2G32600.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S29_139V6.1 (Physcomitrella patens), 3'ss of exon 1
cttgagtttgtttggctgttgtttctagaattaggttcttttttttaatt--ttcccctcatgccactaattt---gatttttggtgtgtttttatgttgtgcagCTATGAGTGTAAACTATGTCTAACACTGCATAACAATGAAGGAAACTACTTGGCACATACTCAAGGTAAGAGGCATCAGACAAACTTGGCAAAGAGAGCT
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-----atgtgtacggatattgtccctttctctttgtactgcatggaaggtcatttcactggaacgattatcttattgaaatatagtgggtatttccttggtgcagTTATGAATGTAAGCTTTGCTTGACACTTCATAACAACGAGGGTAATTATTTGGCTCATACCCAAGGCAAGCGGCATCAGACAAATTTGGCAAAACGTGCA
upper sequence: AT2G32600.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ15163 (Selaginella moellendorffii), 3'ss of exon 1
-cttgagtttgtttggctgttgtttctagaattaggttcttttttttaattttcccctcatgccactaatttgatttttggtgtgtttttatgttgtgcagCTATGAGTGTAAACTATGTCTAACACTGCATAACAATGAAGGAAACTACTTGGCACATACTCAAGGTAAGAGGCATCAGACAAACTTGGCAAAGAGAGCT
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gtctgtctctctttcatttttttctcttggaggagaatgtccgctgt--ttttctcgagattgggcgagtgatggcattgaaattcctttggttttggcagCTACGAGTGTAAGCTTTGCTTGACGCTGCACAACAATGAGGGAAACTACTTGGCACACACGCAAGGCAAGCGCCACCAGACGAATTTGGCCAAGCGCGCGMapped 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|47831635|gb|CK121319.1|CK121319EST: ACCATAGACCTTGCTAAAGATCCGTATTTCATGCGAAATCATCTTGGAAG CTATGAGTGTAAACTATGTCTAACACTGCATAACAATGAAGGAAACTACTT
genomic: ACCATAGACCTTGCTAAAGATCCGTATTTCATGCGAAATCATCTTGGAAGgtatgttact ... tgttgtgcagCTATGAGTGTAAACTATGTCTAACACTGCATAACAATGAAGGAAACTACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattttcccctcatgccactaatttgatttttggtgtgtttttatgttgtgcagCTATGAGTGTAAACTATGTCTAACACTGCATAACAATGAAGGAAACTACTTGGCACATACTCAAGGTAAGAGGCATCAGACAAACTTGGCAAAGAGAGCT
tttttat CT-rich tract
actaatttgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgagtttgtttggctgttgtttctagaattaggttcttttttttaattttcccctcatgccactaatttgatttttggtgtgtttttatgttgtgcagCTATGAGTGTAAACTATGTCTAACACTGCATAACAATGAAGGAAACTACTTGGCACATACTCAAGGTAAGAGGCATCAGACAAACTTGGCAAAGAGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - tgtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttttgg