Sequence
atgc intronic sequence ATGC exonic sequenceGGGTTGCATTTATGACCAAAAGCGAGATTGATCATCTTGAAGATGGTTATAGATGGCGAAAATATGGACAAAAAGCAGTGAAGAACAGCCCTTATCCAAGgttcatttattcactacactctattcaaatccacacatttataagttacagatatatatatcataatggttttgtaagaaaataaagtgtatattatcataatatcataatttgtttatgcgttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G29860.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G29860.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S159_105V6.1 (Physcomitrella patens), 5'ss of exon 2
GGGTTGCATTTATGACCAAAAGCGAGATTGATCATCTTGAAGATGGTTATAGATGGCGAAAATATGGACAAAAAGCAGTGAAGAACAGCCCTTATCCAAGgttcatttattcactacactctattcaaatccacacatttataagttacagatatatatatcataatggttttgtaagaaaataaagtgtatattatcataatatcataatttgtttatgcgttttcag
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GATTTGCCATCAAAACGCGAACCGACGTGGACATCATGGACGATGGTTTTAAATGGCGCAAATATGGCCAGAAAGCCGTCAAGAACAGCCCTCATCCAAGgtttgtctggtcaccacgcgc-gtttatcaccatattccccccatcttcaagtctagttagcaacaagtatctg-attaaaatcgttctgagatatgtgcag---------------------------
upper sequence: AT1G29860.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S35_401V6.1 (Physcomitrella patens), 5'ss of exon 4
GGGTTGCATTTATGACCAAAAGCGAGATTGATCATCTTGAAGATGGTTATAGATGGCGAAAATATGGACAAAAAGCAGTGAAGAACAGCCCTTATCCAAGgttcatttattcactacactctattcaaatccacacatttataagttacagatatatatatcataatggttttgtaagaaaataaagtgtatattatcataatatcataatttgtttatgcgttttcag
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GATACGCTATCAAAACCAGAACAGATGTGGATGTTCTCGATGATGGGTTTAAGTGGCGTAAATATGGACAAAAAGCCGTGAAGAATAGCCCTCATCCCAGgtaag---atctagaacctttttttttttttttttttttttttttttttttttaaagactccaa-------ctttaggataataata-gcaggataccattagctagtgtt------------------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|124834107|gb|EH918546.1|EH918546EST: AGATGGCGAAAATATGGACAAAAAGCAGTGAAGAACAGCCCTTATCCAAG GAGTTACTATAGGTGCACAACACAG
genomic: AGATGGCGAAAATATGGACAAAAAGCAGTGAAGAACAGCCCTTATCCAAGgttcatttat ... gcgttttcagGAGTTACTATAGGTGCACAACACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGTTGCATTTATGACCAAAAGCGAGATTGATCATCTTGAAGATGGTTATAGATGGCGAAAATATGGACAAAAAGCAGTGAAGAACAGCCCTTATCCAAGgttcatttattcactacactctattcaaatccacacatttataagttacagatatatatatcataatggttttgtaagaaaataaagtgtatattatcataatatcataatttgtttatgcgttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC