Sequence
atgc intronic sequence ATGC exonic sequenceCCCGTGTCAATTTTAGGGAGACTATTACCCAGCGCGCTGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCTGGTCAATACGGTAGAGTTACAGGgtgagtatcaaaaatttaaagaccctaaatgatgtcgacaaaaaaaaaagatccatgctaaaccattcctaacgatgtctggttaaattgatatcattgttag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G45332.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA01G14800.1 (Glycine max), 5'ss of exon 9
CCCGTGTCAATTTTAGGGAGACTATTACCCAGCGCGCTGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCTGGTCAATACGGTAGAGTTACAGGgtgagtatcaaaaatttaaagaccctaaatgatgtcgacaaaaaaaaaagatccatgctaaaccattcctaacgatgtctggttaaattgatatcattgttag-
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CCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAGGTCAATATGGACGGGTAATTGGgtaagtattga----ttagtcattcttattttatttgctgtaaatattatctttccttcaagataaatttatgtatacatgcatgtacgcaccccagttttttc
upper sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 5'ss of exon 14
CCCGTGTCAATTTTAGGGAGACTATTACCCAGCGCGCTGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCTGGTCAATACGGTAGAGTTACAGGgtgagtatcaaaaatttaaagaccctaaatgatgtcgacaaaaaaaaaagatccatgctaaaccattcctaacgatgtctggttaaattgatatcattgttag
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CTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAGGTCAATATGGAAGGGTCTGTGGgtaagcat-agatctattattggcttattctttttgtgtatattcttattatttaatataagtatcaactgcagatggattgccaaatttatttttttttc--
upper sequence: AT1G45332.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: PP1S100_33V6.1 (Physcomitrella patens), 5'ss of exon 12
----------------------CCCGTGTCAATTTTAGGGAGACTATTACCCAGCGCGCTGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCTGGTCAATACGGTAGAGTTACAGGgtgagtatcaaaaatttaaag-accctaaat--gatgtc----------gacaaaaaaaaaagatccatgctaaaccattcctaacgatgt-ctggttaaattgatatcattgttag-----------------
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GTCGATGCCGTAGTCGGAAAGCCACAAGTAAATTTTAGGGAGACCATCACACAACGAGCTGAATTTGATTATCTTCATCGAAAgcaaagtggaggacagggtcaatacggtcgtgttgtagggtatctgaagagaacttatactatcattacttcgatttctctgttttgtgatagatcgcattgtttgaaacgaaggaagtctaggagtttcatttattgacctgttttttttcttttctgtttctgctggatagMapped 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|19740618|gb|AU225971.1|AU225971EST: TTACATAAGAAGCAAAGTGGAGGAGCTGGTCAATACGGTAGAGTTACAGG GTACGTGGAACCGCTACCACCAGGCTCTAAAGAGAAATTTGAGTTTGAAAA
genomic: TTACATAAGAAGCAAAGTGGAGGAGCTGGTCAATACGGTAGAGTTACAGGgtgagtatca ... tcattgttagGTACGTGGAACCGCTACCACCAGGCTCTAAAGAGAAATTTGAGTTTGAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCGTGTCAATTTTAGGGAGACTATTACCCAGCGCGCTGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCTGGTCAATACGGTAGAGTTACAGGgtgagtatcaaaaatttaaagaccctaaatgatgtcgacaaaaaaaaaagatccatgctaaaccattcctaacgatgtctggttaaattgatatcattgttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT