Sequence
atgc intronic sequence ATGC exonic sequencegttcattaatttgcaacacatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaaatctttggttcatattgaatatgtagATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAAAAACTTTTGGAACTCATGTCTTAAGAAGAAGCTGAGAAGAAAAGGCATT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G26660.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G26660.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S211_139V6.1 (Physcomitrella patens), 3'ss of exon 2
gttcattaatttg--caacacatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaaatctttggttcat-attgaatatgtagATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAAAAACTTTTGGAACTCATGTCTTAAGAAGAAGCTGAGAAGAAAAGGCATT
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gatgagagattctgtcaacccttgtgaatggtcgacatgatacaacat-tgttatttttaattttttaatttttaaaa---------ttagtcaatcggtgggtctgcagGTGGTCACAGATTGCAACACAACTCCCAGGCCGCACGGACAACGAGATCAAGAACTTCTGGAACTCATGCATCAAGAAGAAGCTCCGCAGCATGGGAATC
upper sequence: AT5G26660.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S149_164V6.1 (Physcomitrella patens), 3'ss of exon 2
gttcattaatttgcaacacatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaa-atctttggttcatattgaatatgtagATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAAAAACTTTTGGAACTCATGTCTTAAGAAGAAGCTGAGAAGAAAAGGCATT
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-----ctgagacacgataaggtcacat-gttggtaataagctatcccccccccccccccccccctgctagttgggctaatgcagcaattgatccccttg--catgcagGTGGTCTCAGATTGCAACTCAGTTACCAGGCCGCACCGACAACGAAATCAAAAACTTCTGGAACTCCTGTATCAAGAAGAAGCTTCGCAACATCGGCATC
upper sequence: AT5G26660.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: EFJ38262 (Selaginella moellendorffii), 3'ss of exon 2
gttcattaatttgcaacacatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaaatctttggttcatattgaatatgtagATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAAAAACTTTTGGAACTCATGTCTTAAGAAGAAGCTGAGAAGAAAAGGCATT
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-------------------gtgtgtgctcgagcgagctggaattcgatttggtgtggaaatgta---gcattggattga----tgctgaattgtttc---catacagGTGGGCGCAAATTGCGACGCAGCTCCCGGGTCGAACAGACAACGAGATTAAAAACTTTTGGAACTCGTGCCTGCGGAAGAAGCTACGTCAAGTTGGTATCMapped 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|116417753|gb|EG460345.1|EG460345EST: CAAGACGAAGAAAGCTTGATCATTGAGCTCCATGCTGCATTAGGCAACAG ATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAA
genomic: CAAGACGAAGAAAGCTTGATCATTGAGCTCCATGCTGCATTAGGCAACAGgttcattaat ... gaatatgtagATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatatatatatatatgttaaaaaaaaaatctttggttcatattgaatatgtagATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAAAAACTTTTGGAACTCATGTCTTAAGAAGAAGCTGAGAAGAAAAGGCATT
atatatatatatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcattaatttgcaacacatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaaatctttggttcatattgaatatgtagATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAAAAACTTTTGGAACTCATGTCTTAAGAAGAAGCTGAGAAGAAAAGGCATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA