Sequence
atgc intronic sequence ATGC exonic sequenceGGATATTGGATGGTCAAGCGGGCTGTTGGAACAAAAGCCTGCTTGCTCGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAACTTTTTGGAGgtataaatagtttctacttccctcgattctttcattgcaataaactaagtttacatgatagatatgagaattgtttttcacttatgatttacatgaagtatcaatatttctcgtaaaccataaaataaacagtacatgtccaacatacacacacatggttgctgagttcttatgaaatcgtggtgttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G35180.4 |
intron # | 23 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G35180.4 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA15G26120.1 (Glycine max), 5'ss of exon 8
GGATATTGGATGGTCAAGCGGGCTGTTGGAACAAAAGCCTGCTTGCTCGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAACTTTTTGGAGgtataaatagtttctacttccctcgattctttcattgcaataaactaagtttacatgatagatatgagaattgtttttcacttatgatttacatgaagtatcaatatttctcgtaaaccataaaataaacagtacatgtccaacatacacacacatggttgctgagttcttatgaaatcgtggtgttgcag
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GGATATTGGATGGTCAAGCGAGCTGTAGGAACAAAAGCTTGCCTACTAGGGAAAGCTGTCACTTGTAAATACTTTAAACAAGATAATTTTTTTGAGgtaaagttaaagtag--------caagtcaaggagtaaaatt--ctaatattatgc-acaaattttaaactt--tctacctttatg---tgtatagaatat-attctttggtattag--------------------------------------------------------------------------
upper sequence: AT5G35180.4 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA13G22460.1 (Glycine max), 5'ss of exon 20
GGATATTGGATGGTCAAGCGGGCTGTTGGAACAAAAGCCTGCTTGCTCGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAACTTTTTGGAGgtataaatagtttctacttccctcgattctttcattgcaataaactaagtttacatgatagat-atgagaattgtttttcacttatgatttacatgaagtatcaatatttctcgtaaaccataaaataaacagtacatgtccaacatacacacacatggttgctgagttcttatgaaatcgtggtgttgcag
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GGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGAAAAGCTGTGACTTGTAAATACTTTAGACAAGATAATTTTTTGGAGgtaa--------tgtgcttccttagcattttt--tcccttttgacta----ctcatgttagatgatgataattgatttagtttagtgtcat---tggaatatcaagttaagaagtaa---------------------------------------------------------------------------
upper sequence: AT5G35180.4 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA17G11250.1 (Glycine max), 5'ss of exon 20
GGATATTGGATGGTCAAGCGGGCTGTTGGAACAAAAGCCTGCTTGCTCGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAACTTTTTGGAGgtataaatagtttctacttccctcgattctttcattgcaataaactaagtttacatgatagat-atgagaattgtttttcacttatgatttacatgaagtatcaatatttctcgtaaaccataaaataaacagtacatgtccaacatacacacacatggttgctgagttcttatgaaatcgtggtgttgcag
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GGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGAAAAGCTGTGACTTGTAAATACTTTAGACAAGATAATTTTTTGGAGgtaa--------tgtgcttccttagcgttttt--tcccatttgacta----ctcgggttagatgatgataattgattt--agttctgtattat-tggaacatcaagttaagaagtaa---------------------------------------------------------------------------
upper sequence: AT5G35180.4 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: PP1S376_46V6.1 (Physcomitrella patens), 5'ss of exon 19
GGATATTGGATGGTCAAGCGGGCTGTTGGAACAAAAGCCTGCTTGCTCGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAACTTTTTGGAGgtataaatagtttctacttccctcgattctttcattgcaataaactaagtttacatgatagatatgagaattgtttttcacttatgatttacatgaagtatcaatatttctcgtaaaccataaaataaacagtacatgtcca-acatacacacacatggttgctgagttcttatgaaatcgtggtgttg-cag
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GGTTATTGGATGGTGAAGCGTGCTGTTGGTACAAAAGCATGCCTACTGGGCAAAGCTGTCACTTGTAATTACTTGCGTAGAGATAATTTTCTTGAGgtat-----------------ttcaatctaccaatttgtggaagttgggttgacaacatagattct---tttatcaaacacttgt-attaccctcggatattatt-ttattaaaaacctatgatttcaatgccttgagtccctaagaattctcaaattgctcgtttgacctattagaaatatcttattttcagMapped 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|164216255|gb|ES063434.1|ES063434EST: CGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAACTTTTTTGGAG ATTGATGTAGATATTGGATCATCGGCTGTTGCGAGGAGCGTTATTG
genomic: CGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAAC-TTTTTGGAGgtataaatag ... ggtgttgcagATTGATGTAGATATTGGATCATCGGCTGTTGCGAGGAGCGTTATTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGATATTGGATGGTCAAGCGGGCTGTTGGAACAAAAGCCTGCTTGCTCGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAACTTTTTGGAGgtataaatagtttctacttccctcgattctttcattgcaataaactaagtttacatgatagatatgagaattgtttttcacttatgatttacatgaagtatcaatatttctcgtaaaccataaaataaacagtacatgtccaacatacacacacatggttgctgagttcttatgaaatcgtggtgttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG