Sequence
atgc intronic sequence ATGC exonic sequenceACATGTTTTCTTCCAGAAGAGACATGGACCAGGCCAAAGATCATTATACAATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAGgtatttccagagatcttttcctttattcttatttgcccaagatggtactaattacgaaagactcatggtactaaaaataatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G15930.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G15930.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os08g31840.2 (Oryza sativa), 5'ss of exon 4
ACATGTTTTCTTCCAGAAGAGACATGGACCAGGCCAAAGATCATTATACAATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAGgtatttccagagatcttttcctttattc---ttatttgcccaagatggtactaattacgaaagactcatggtactaaaaataatgcag
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ACATATTTTCTTCCAACAGAGACATGGTCCAGGCCAAAGATCCTTGTATAATGTTCTAAAAGCATACTCTGTTTATGATAGGGATGTTGGATACGTGCAGgtttgtgttaaaactgctgactagttttaggatataaacttattctgttgagtaatatgtgttctcttttgca-taatcatgatgcag
upper sequence: AT5G15930.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 4
ACATGTTTTCTTCCAGAAGAGACATGGACCAGGCCAAAGATCATTATACAATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAGgtatttccagagatcttttcctttattcttatttgcccaagatggtact--aattacgaaagactcatggtactaaaaataatgcag
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TCATATATTCTTTCAACAAAGGCATGGTCCAGGCCAAAGATCATTGTATAACATTTTGAAAGCATATTCTGTCTATGACAGGGATGTTGGATATGTGCAGgtttgttttgagttcggtgacctattttttcagatagaaagatctctctggaataatattctattgtttacacaattcattttgcag
upper sequence: AT5G15930.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G07090.1 (Glycine max), 5'ss of exon 3
ACATGTTTTCTTCCAGAAGAGACATGGACCAGGCCAAAGATCATTATACAATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAGgtatttccagagatcttttcctttattcttatttgcccaagatggtactaattacgaaagactcatggtactaaaaataatgcag
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ACATGTATTCTTCCAACAGAGACATGGACCTGGGCAGCGGTCCCTCTACAATGTTCTAAAAGCTTACTCTGTCTTTGACAGAGATGTAGGCTATGTTCAGgttttactcaggaacccatcacctttctgtgcttgttacaaa--gta----tttcataatattgatcattttaaaactacag---
upper sequence: AT5G15930.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G05360.1 (Glycine max), 5'ss of exon 4
ACATGTTTTCTTCCAGAAGAGACATGGACCAGGCCAAAGATCATTATACAATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAGgtatttccagagatcttttcctttattcttatttgcccaagatggtactaattacgaaagactcatggtactaaaaataatgcag
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ACATGTATTCTTTCAACAGAGACATGGACCTGGGCAGCGGTCCCTCTACAATGTTCTAAAAGCTTACTCTGTCTTTGACAGAGATGTAGGCTATGTTCAGgttttactcaggaccccatcaccttgctgtgcttgttacaaa--gta----tttcataatattgaccattttaaaactccag---
upper sequence: AT5G15930.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 4
ACATGTTTTCTTCCAGAAGAGACATGGACCAGGCCAAAGATCATTATACAATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAGgtat---ttccagagatcttttcctttattcttatttgcccaagatggtactaattacgaaagactcatggtactaaaaataatgcag
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ACATGTTTTCTTCCAGCAGAGACATGGACCTGGTCAAAGGTCCCTCTACAATGTTTTGAAGGCATACTCTGTGTATGACAGAGATGTTGGATATGTTCAGgtttggatctcatgtatctcatcactcttctatttactgtttgtaggatactgaatgacattggat--tggtatcgtttgaaatgcagMapped 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|124858117|gb|EH942554.1|EH942554EST: ATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAG GGAATGGGTTTCATAGC
genomic: ATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAGgtatttccag ... aataatgcagGGAATGGGTTTCATAGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACATGTTTTCTTCCAGAAGAGACATGGACCAGGCCAAAGATCATTATACAATGTTCTAAAAGCATACTCTGTCTATGACAGAGATGTCGGATATGTTCAGgtatttccagagatcttttcctttattcttatttgcccaagatggtactaattacgaaagactcatggtactaaaaataatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG