Sequence
atgc intronic sequence ATGC exonic sequence...ataaaggcaatagaaagaaaaagtttctattatgctagctctttacattgtaactctaaactgcttgtttccatcgtataatgttttcgccaacttacagTGAGAAAGGGAAAATGTGTGCTATTAAAGAGGTCAAGGTCATTTCTGACGATCAAACATCAAAAGAATGTCTGAAGCAACTAAATCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53570.3 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53570.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os11g10100.2 (Oryza sativa), 3'ss of exon 2
ataaaggcaatagaaagaa-----aaagtttctattatgctagctctttacattgtaactctaaactgcttgttt--ccatcgtataatgttttcgccaacttacagTGAGAAAGGGAAAATGTGTGCTATTAAAGAGGTCAAGGTCATTTCTGACGATCAAACATCAAAAGAATGTCTGAAGCAACTAAATCAG
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gtacttgcttttgaaagcatttactgtattttcatccttacggagatgaatatttcttttctacaatgcatactgaatcgctattcaaaaatgtatttaa--tgcagTGAAGGTGGCCAAATGTGTGCAATTAAAGAGGTCAAGGTTATTTCTGATGATTCTAACTCGAAAGAGTGTCTCAGGCAGCTACATCAG
upper sequence: AT1G53570.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 2
--ataaaggcaatagaaagaaaaagtttctattatgctagctctttacattgtaactctaaactgcttgtttccatcgtataatgttttcgccaacttacagTGAGAAAGGGAAAATGTGTGCTATTAAAGAGGTCAAGGTCATTTCTGACGATCAAACATCAAAAGAATGTCTGAAGCAACTAAATCAG
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ttatttcatcattattctttcagattgtgtattcgcctcaatgtctatattctggac--agattactgaaaccatttcttttccgcttcctatgtttgacagTGAAAATGGACAAATGTGTGCAATAAAAGAGGTCAAGGTTGTCTCTGATGATCAAACATCAAAAGAGTGCCTCAAACAACTTAACCAG
upper sequence: AT1G53570.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 2
ataaaggcaatagaaagaaaaagtttctattatgctagctctttacatt-gtaactctaaactgcttgtttccatcgtataa----tgttttcgccaactta-cagTGAGAAAGGGAAAATGTGTGCTATTAAAGAGGTCAAGGTCATTTCTGACGATCAAACATCAAAAGAATGTCTGAAGCAACTAAATCAG
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------ctatttcaaaaacccatgttaaatggtaaggagactatatatttgttgctttattcagtttattttatttttctaaatgttgtgtatgcaattttaacagTGAAAACGGGCAAATGTGTGCGATAAAAGAAGTCAAGGTTGTTTCAGATGATCATACATCAAAAGAATGCCTTAAGCAACTGAACCAGMapped 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|47831576|gb|CK121260.1|CK121260EST: AAATTTCTTGGGAGTGGCACCTTTGGTCAAGTCTATCTTGGTTTCAACAG TGAGAAAGGGAAAATGTGTGCTATTAAAGAGGTCAAGGTCATTTCTGACGA
genomic: AAATTTCTTGGGAGTGGCACCTTTGGTCAAGTCTATCTTGGTTTCAACAGgtgagataat ... caacttacagTGAGAAAGGGAAAATGTGTGCTATTAAAGAGGTCAAGGTCATTTCTGACGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattgtaactctaaactgcttgtttccatcgtataatgttttcgccaacttacagTGAGAAAGGGAAAATGTGTGCTATTAAAGAGGTCAAGGTCATTTCTGACGATCAAACATCAAAAGAATGTCTGAAGCAACTAAATCAG
ttttcgcc CT-rich tract
tataatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataaaggcaatagaaagaaaaagtttctattatgctagctctttacattgtaactctaaactgcttgtttccatcgtataatgttttcgccaacttacagTGAGAAAGGGAAAATGTGTGCTATTAAAGAGGTCAAGGTCATTTCTGACGATCAAACATCAAAAGAATGTCTGAAGCAACTAAATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA