Sequence
atgc intronic sequence ATGC exonic sequenceACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G02460.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os08g31840.2 (Oryza sativa), 5'ss of exon 4
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatc----tgcag
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ACATATTTTCTTCCAACAGAGACATGGTCCAGGCCAAAGATCCTTGTATAATGTTCTAAAAGCATACTCTGTTTATGATAGGGATGTTGGATACGTGCAGgtttgtgttaaaactgctgactagttttaggatataaacttattctgttgagtaatatgtgttctcttttgcataatcatgatgcag
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G05360.1 (Glycine max), 5'ss of exon 4
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatctgcag
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ACATGTATTCTTTCAACAGAGACATGGACCTGGGCAGCGGTCCCTCTACAATGTTCTAAAAGCTTACTCTGTCTTTGACAGAGATGTAGGCTATGTTCAGgttt-tactcaggaccccatcacc--ttgctgtgcttgttacaa--agtatttca-taatattgaccattttaaaa-ctccag
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G07090.1 (Glycine max), 5'ss of exon 3
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatctgcag
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ACATGTATTCTTCCAACAGAGACATGGACCTGGGCAGCGGTCCCTCTACAATGTTCTAAAAGCTTACTCTGTCTTTGACAGAGATGTAGGCTATGTTCAGgttttactcaggaacccatcacct---ttctgtgcttgttacaa--agtatttca-taatattgatcattttaaaa-ctacag
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 4
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatc---tgcag
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ACATGTTTTCTTCCAGCAGAGACATGGACCTGGTCAAAGGTCCCTCTACAATGTTTTGAAGGCATACTCTGTGTATGACAGAGATGTTGGATATGTTCAGgtttggatctcatgtatctcatcactcttctatttactgtttgtaggatactgaatgacattggattggtatcgtttgaaatgcag
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S15_13V6.3 (Physcomitrella patens), 5'ss of exon 4
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttccc--ttgtt--tcccatttttctttcttttagtatgggactaagat--tcatgattctaatatctgcag-----------
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ACATGTGTTTTTCCAGCAGAGACACGGACCTGGACAACGAGCTCTCTATAACGTTCTCAAGGCTTACTCAGTTTATGACCGAGATGTCGGTTATGTGCAGgtaggaattgcaaaatgctctcaattgttgtttcaatgctttccattatgtctctgagcttgagacagtcttatgttttatgtatgaaggaatttcgtac
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S263_22V6.1 (Physcomitrella patens), 5'ss of exon 4
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagat------atttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatctgcag-----------
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GCATGTTTTCTTCCAGCAAAGACATGGGCCGGGTCAACGGGCTCTGTACAATGTCCTCAAGGCATACTCAGTTTATGACCGAGATGTTGGCTATGTGCAGgtataaatccaaaattgcaaaacatctgttttttcaatgtctcgcatcatagaatctgacggtagtgtagacaaatatagcttatttattccgtagaagt
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ27331 (Selaginella moellendorffii), 5'ss of exon 3
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatctgcag
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GCATGTTTTCTTCCAGCAGCGGCACGGGCCTGGCCAGCGCTCGCTGTACAATGTCTTGAAGGCTTACTCCGTTTACGACAGAGATGTTGGCTATGTCCAGgtaagagc----gacactttctcacgtttggaaacaatgttgttaagctcctcgatc---atccatgaccgcag---------
upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ35318 (Selaginella moellendorffii), 5'ss of exon 3
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatctgcag
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GCATGTTTTCTTCCAGCAGCGGCACGGGCCTGGCCAGCGCTCGCTGTACAATGTCTTGAAGGCTTACTCCGTTTACGACAGAGATGTTGGCTATGTCCAGgtaagagcgacac---tttctcacgcttggaaacaatgttgttaatctcctcgatc----atccatgaccgcag---------Mapped 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|124933181|gb|EL010365.1|EL010365EST: TTTATGACAGAGATGTCGGATATGTTCAG GGGATGGGGTTTATAGCCGGTTTGTTGCTTCTCTATATGAGCGAAGAAGAT
genomic: TTTATGACAGAGATGTCGGATATGTTCAGgtctatcctc ... atatctgcagGGGATGGGGTTTATAGCCGGTTTGTTGCTTCTCTATATGAGCGAAGAAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACATGTTTTCTTTCAGAAGAGACATGGACCTGGGCAAAGATCCTTGTACAATGTCCTTAAGGCATACTCAGTTTATGACAGAGATGTCGGATATGTTCAGgtctatcctctagatatttcccttgtttcccatttttctttcttttagtatgggactaagattcatgattctaatatctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG