Sequence
atgc intronic sequence ATGC exonic sequenceAAATGCAAGCTGAGTGGATTGAAGAGGACGAGCCTGGTGTTTACATTACCATCAGACAATTATCAGATGGGACTAGAGAGCTACGTCGAGTCAGATTCAGgtataacaaaacgtctaaaactaagcatttgctaatcatatacattttgaaagttggtaatcataccgtgactaaccggaatctatggttttgtggtttaatcaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G31880.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G31880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA16G17590.1 (Glycine max), 5'ss of exon 3
AAATGCAAGCTGAGTGGATTGAAGAGGACGAGCCTGGTGTTTACATTACCATCAGACAATTATCAGATGGGACTAGAGAGCTACGTCGAGTCAGATTCAGgtataacaaa--acgtctaaaactaagcatttgctaatcatatacattttgaaagttggtaatcataccgtgactaaccggaatctatggttttgtggtttaatcaacag
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AAATGGAGACAGAATGGGTAGAACAAGACGAGCCTGGAGTTTACATTACAATCAGGCAGTTAGCTGATGGAACTAGGGAGCTTAGACGTGTCAGATTCAGgtactatacattgcatcttcaagaacatgtttcttattgctttttcttctcag----ggaaatgattctat--cttaggaacatgtattatgatgaaatatacaca----
upper sequence: AT1G31880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA16G08070.1 (Glycine max), 5'ss of exon 5
AAATGCAAGCTGAGTGGATTGAAGAGGACGAGCCTGGTGTTTACATTACCATCAGACAATTATCAGATGGGACTAGAGAGCTACGTCGAGTCAGATTCAGgtataacaaaacg-----tctaaaactaagcatttgctaatcatatacattttgaaagttggtaatcataccgtgactaaccggaatctatggttttgtggtttaatcaacag
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AAATGGAGACAGAATGGGTAGAACAAGACGAGCCAGGAGTTTACATTACAATCAGGCAGTTAGCTGATGGAACAAGAGAGCTTAGACGTGTCAGATTCAGgtactatacaatgcatcttcaaaaacatgttccttgtttattgtttttccttcacagggaaatgatcctattatgatgaaatatacacaagaaatgaaag-------------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|19742062|gb|AU227415.1|AU227415EST: ATCAGACAATTATCAGATGGGACTAGAGAGCTACGTCGAGTCAGATTCAG CCGGGAACGGTTTGGGGAAGTGCATGCAAAGACATGGTGGGAGCAGAACAG
genomic: ATCAGACAATTATCAGATGGGACTAGAGAGCTACGTCGAGTCAGATTCAGgtataacaaa ... taatcaacagCCGGGAACGGTTTGGGGAAGTGCATGCAAAGACATGGTGGGAGCAGAACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATGCAAGCTGAGTGGATTGAAGAGGACGAGCCTGGTGTTTACATTACCATCAGACAATTATCAGATGGGACTAGAGAGCTACGTCGAGTCAGATTCAGgtataacaaaacgtctaaaactaagcatttgctaatcatatacattttgaaagttggtaatcataccgtgactaaccggaatctatggttttgtggtttaatcaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT