Sequence
atgc intronic sequence ATGC exonic sequenceGTGGTTATGCAGCTGGATACTACAGTTACAAGgtaaaatatattcttttgtttctatataattcaccgatgcagcagttctattcacgatggttctctgctggtcaaatatctaaatacacttttgtggacaacgtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G10540.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G10540.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: LOC_Os02g58340.1 (Oryza sativa), 5'ss of exon 14
GTGGTTATGCAGCTGGATACTACAGTTACAAGgtaaaatatattcttttgtttctatataattcaccgatgcagcagttctattcacgatggttctctg-ctggtcaaatatctaaatacacttttgtggacaacgtgcag
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GAGGCTATGCAGCTGGATACTACAGTTACAAGgta-----tattgctgtaaacgtttaaaacattacgttccttctgtggcat--atgagtatgctgaaactagtatcttttctatgtgcacag-----------------
upper sequence: AT5G10540.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GRMZM2G133919_T01 (Zea mays), 5'ss of exon 14
GTGGTTATGCAGCTGGATACTACAGTTACAAGgtaaaatatattcttttgtttctatataattcaccgatgcagcagttctattcacgatggttctctgctggtcaaatatctaaatacacttttgtggacaacgtgcag
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GTGGCTATGCTGCTGGATACTACAGTTACAAGgtaggtggt-------tgttgctctg-aatgcccttgtgttgt-gtcctgtcttt-atactcctaggttg-----aggcgctaataccatgtcatgtccttcattcag
upper sequence: AT5G10540.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 14
GTGGTTATGCAGCTGGATACTACAGTTACAAGgtaaaatata---ttcttttgtttctatataattcaccgatgcagcagttctattcacgatg-gttctctgctggtca-------aatatctaaatacacttttgtggacaacgtgcag----------------------------------------------------------------------
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GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctgcattgctttaatgatgattcacatcttttgtcttgaggatcttttttggatgtgttttccacttttttttctttcataattgtggtagactcccctttcctttatagaactctccctgtccatccaatgagtggagaaagaactatttatatcttatggtgaatttgtctgttatgcagMapped 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|125131540|gb|EL174111.1|EL174111EST: TATGCAGCTGGATACTACAGTTACAAG TGGGCGGAGGTTTTGTCTGCAGATGCGTT
genomic: TATGCAGCTGGATACTACAGTTACAAGgtaaaatata ... caacgtgcagTGGGCGGAGGTTTTGTCTGCAGATGCGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGTTATGCAGCTGGATACTACAGTTACAAGgtaaaatatattcttttgtttctatataattcaccgatgcagcagttctattcacgatggttctctgctggtcaaatatctaaatacacttttgtggacaacgtgcag
- - - - GCAGCT
- - - - CAGCTG
- - - - - GCTGGA