Sequence
atgc intronic sequence ATGC exonic sequenceAGAAAGTGAGCAAGGTTTCAGGACATAGCTATAACAGAGCTCTTGTAGCTGCATCTATTGGAAGCTATGGTGCTTATCTTGCTGATGGCTCTGAGTACAGgtgcccttttaagcataaatgaattcacaatacacattgttttggttttgaatagattttcaagattctgtcgatgagggacttatagttgttcgatgttcttcttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G25900.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G25900.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: AC233893.1_FGT001 (Zea mays), 5'ss of exon 3
AGAAAGTGAGCAAGGTTTCAGGACATAGCTATAACAGAGCTCTTGTAGCTGCATCTATTGGAAGCTATGGTGCTTATCTTGCTGATGGCTCTGAGTACAGgtgcccttttaagcataaatgaatt-cacaata--cacattgttttggttttgaatagattttcaagattctgtcgatgagggacttata-gttgttcgatgt-tcttcttgcag---------------------------------
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AGTCAACACTGAGGAAGTCCAAACCTATTTACAACCGTGCTCTGGTTGCTGCATCCATTGGTAGCTACGGAGCCTATCTTGCTGATGGATCGGAGTACAGgtaacacgaccataccacacgaaccatgagatagtcagacaacattagattcagg--gccttttttgtttgtaatggt-agttacttgtacattatagagcatgtcctcgttctgtatgcctgtctctcacacgaattggtcttgcag
upper sequence: AT3G25900.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv01s0011g03500.t01 (Vitis vinifera), 5'ss of exon 3
AGAAAGTGAGCAAGGTTTCAGGACATAGCTATAACAGAGCTCTTGTAGCTGCATCTATTGGAAGCTATGGTGCTTATCTTGCTGATGGCTCTGAGTACAGgtgccctt--ttaagca----------taaatgaattcacaatacacattgttttggttttgaatagattttcaagattctg--tcgatgagggact-tatagttgttcgatgttcttcttgcag--------------------------------------
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ATGTCACGAAAAGGGTTCCTGGACATGGCTATAATCGAGCTTTAGTCGCAGCTTCCATAGGAAGCTATGGAGCATATCTTGCTGATGGTTCAGAATACAGgtgccagtcatcagccaactcttttcttagaaacagttggatcatatacagatttaatcgttact-gatatccaatatcttagttacataaacaacaatgttcttgttaaatgaacaacttgtattgtaatcttacttgtaattcatttatctttttctccag
upper sequence: AT3G25900.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S73_196V6.1 (Physcomitrella patens), 5'ss of exon 4
AGAAAGTGAGCAAGGTTTCAGGACATAGCTATAACAGAGCTCTTGTAGCTGCATCTATTGGAAGCTATGGTGCTTATCTTGCTGATGGCTCTGAGTACAGgtgcccttttaagcataaatgaattcacaatac-acattgttttggttt-tgaatagattttcaag------attctgtcgatgaggg-acttatag--ttgttcgatgttcttcttgcag---------------------------------------------------------------------
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AGCATGCACGGACTGCTCGAGCGGGTTCAAACCTGCGTGCCCTTGTTGCTGCTTCTATTGGTAGTTATGGAGCGTATTTAGCTGATGGTTCTGAGTACAGgtatgccagtactccacctttctccagtggtttgaaactcttttggagtatcagaataattacaagtgaaacatccgctcgtttggagtgcttagagcattgattgcggcctcagttggtcacgttcaggcgttgccatgaccagctcatattttgacttcctagctactactgtgtggactctgtgcagMapped 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|125157101|gb|EL186378.1|EL186378EST: TTGGAAGCTATGGTGCTTATCTCGCTGATGGCTCTGAGTACAG TGGTCACTATGGTGAGAATGTAAGTTTGGATAAACTAAAGGACTTTCACAG
genomic: TTGGAAGCTATGGTGCTTATCTTGCTGATGGCTCTGAGTACAGgtgccctttt ... cttcttgcagTGGTCACTATGGTGAGAATGTAAGTTTGGATAAACTAAAGGACTTTCACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAAGTGAGCAAGGTTTCAGGACATAGCTATAACAGAGCTCTTGTAGCTGCATCTATTGGAAGCTATGGTGCTTATCTTGCTGATGGCTCTGAGTACAGgtgcccttttaagcataaatgaattcacaatacacattgttttggttttgaatagattttcaagattctgtcgatgagggacttatagttgttcgatgttcttcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT