Sequence
atgc intronic sequence ATGC exonic sequenceAGATTGCTTGCCTTGACTTCAATCTGCAGAAGACAAAAATGCAGCTGGGTGTCCAAGTTGTTGTTAATGACCCACGAGAACTTGAAAAGATCCGTCAAAGgtagttttcgcagttatacacttttccctgaattccttacattcagagtgcttgcttttttcctaccaaatgtcattcggtttgttctcttgatccttgg...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G20050.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G20050.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G110626_T01 (Zea mays), 5'ss of exon 9
AGATTGCTTGCCTTGACTTCAATCTGCAGAAGACAAAAATGCAGCTGGGTGTCCAAGTTGTTGTTAATGACCCACGAGAACTTGAAAAGATCCGTCAAAGgtagtt----ttcgcagttatacactttt--ccctgaattccttacattcagagtgcttgcttttttcctaccaaatgtcattcggtttgttctcttgatccttgg
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GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTCGTAACTGATCCAAGAGAACTTGAGAAGATTCGTCAGAGgtatttgcattctgtgttctgatactttagaatttgtttgcctgtttctggtagaatcagcactgtgaatacacaatat--ttatatcttctttcatgttac----
upper sequence: AT3G20050.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
AGATTGCTTGCCTTGACTTCAATCTGCAGAAGACAAAAATGCAGCTGGGTGTCCAAGTTGTTGTTAATGACCCACGAGAACTTGAAAAGATCCGTCAAAGgtagtt----ttcgcagttatacacttttcc-ctgaattccttacattcagagtgcttgcttttttcctaccaaatgtcattcggtttgttctcttgatccttgg
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GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcattttgtgttccattactttagaacttagtaaccgggaactgggaacttggccacgttcctcgttccgggaacgtggga-acaatcttgttcc----
upper sequence: AT3G20050.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA05G29870.1 (Glycine max), 5'ss of exon 9
AGATTGCTTGCCTTGACTTCAATCTGCAGAAGACAAAAATGCAGCTGGGTGTCCAAGTTGTTGTTAATGACCCACGAGAACTTGAAAAGATCCGTCAAAGgtagttttcgcagttatacacttttccctgaattcctt--acattcagagtgcttgc-ttttttcctaccaaatgtcattcggtttgttctcttgatccttgg
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GAATTGCTTGTCTTGATTTCAATCTTCAGAAGACAAAAATGCAGTTGGGTGTTCAAGTTTTAGTTACTGATCCTAGGGAACTAGAGAAAATTCGTCAAAGgtactgtcagta-tgatcatttgggttctatattactatgatacccaaccttcctggattcattttcctttaatataataagaataaatctatatcttatt--
upper sequence: AT3G20050.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA08G12970.1 (Glycine max), 5'ss of exon 9
AGATTGCTTGCCTTGACTTCAATCTGCAGAAGACAAAAATGCAGCTGGGTGTCCAAGTTGTTGTTAATGACCCACGAGAACTTGAAAAGATCCGTCAAAGgtagttttcgcagttatacacttttccctgaattcc-ttacattcagagtgcttgc-ttttttcctaccaaatgtcattcggtttgttctcttgatccttgg
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GAATTGCCTGTCTTGATTTCAATCTTCAGAAGACAAAAATGCAGTTGGGTGTTCAAGTTTTAGTTACTGATCCTAGGGAGCTAGAGAAAATTCGTCAAAGgtactgtcagtaggaccatatggcttctatattactatgatacccaaccttcctggattcattttccttaaataaaatgaaaatacatctattatcttat--
upper sequence: AT3G20050.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: PP1S200_112V6.2 (Physcomitrella patens), 5'ss of exon 9
AGATTGCTTGCCTTGACTTCAATCTGCAGAAGACAAAAATGCAGCTGGGTGTCCAAGTTGTTGTTAATGACCCACGAGAACTTGAAAAGATCCGTCAAAGgtagttttcgcagttatacacttt-------tccctgaattccttacattca-gagtgcttgcttttttcctaccaaatgtcattcggtttgttctcttgatccttgg
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GGATTGCATGCTTAGATGTCAACTTGCAGAAGACTAAAATGCAGATGGGGGTACAGGTTCTTGTTACAGATCCGAGGGAGCTTGAAAAGATCCGTCAAAGgtgagtttctttacggagcatttccgaggtatgaatgtatacttcaaaatcgcaaatacgtccatgtcctcagaagcagaacttttgacgggttgcagaa--------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|164013081|gb|ES057224.1|ES057224EST: ACTTGAAAAGATCCGTCAAAG AGAAGCTGACATGACAAAAGAGCGGATAGAGAAACTTCTCAAAGCTGGGGC
genomic: ACTTGAAAAGATCCGTCAAAGgtagttttcg ... gtttccacagAGAAGCTGACATGACAAAAGAGCGGATAGAGAAACTTCTCAAAGCTGGGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATTGCTTGCCTTGACTTCAATCTGCAGAAGACAAAAATGCAGCTGGGTGTCCAAGTTGTTGTTAATGACCCACGAGAACTTGAAAAGATCCGTCAAAGgtagttttcgcagttatacacttttccctgaattccttacattcagagtgcttgcttttttcctaccaaatgtcattcggtttgttctcttgatccttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttttccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgatcc