Sequence
atgc intronic sequence ATGC exonic sequenceGATGTTAGAATATAGAAAAGCAGTTCAGGAAACTGTACACGAGCAGTTTCGTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAGgtatctagaacaattctctggttccaaattgtgtaaagcgatgaaaaaatcaggcaccagtatgctaatgcttagttaatcttgactttgcttctatctag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G25520.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G26970.1 (Glycine max), 5'ss of exon 4
GATGTTAGAATATAGAAAAGCAGTTCAGGAAACTGTACACGAGCAGTTTCGTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAGgtatctagaacaattctctggttccaaattgtgtaaagcgatgaaaaaatcaggcaccagtatgctaatgcttagttaatcttgactttgcttctatctag
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GATGTTAGAATATGGAAAAGCAGTTCAAGAGAGTGTATATGAGCAGCTTCGTGTTGTTCGTGAAGGTCAACTTCGTATCATATTCACTCAAGACTTGAAGgt-tacaaattgttattgtagttaaatatattttctaat--tgaatattttctatataatgaccttaaattcctgttaatttgcacag-------------
upper sequence: AT4G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G32260.1 (Glycine max), 5'ss of exon 6
GATGTTAGAATATAGAAAAGCAGTTCAGGAAACTGTACACGAGCAGTTTCGTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAGgtatctagaacaattctctggttccaaattgtgtaaagcgatgaaaaaatcaggcaccagtatgctaatgcttagttaatcttgactttgcttctatctag
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GATGTTAGAATATGGAAAAGCAGTTCAAGAGAGTGTATATGAGCAGCTTCGTGTTGTTCGTGAAGGTCAACTTCGTATCATATTCACTCAAGACTTGAAGgt-tacaaaattgttatttg-ttaaatatattttccatt--tgaacattttctatataatgaccttgaattcctgttaatttgcacag-------------
upper sequence: AT4G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G32250.1 (Glycine max), 5'ss of exon 4
GATGTTAGAATATAGAAAAGCAGTTCAGGAAACTGTACACGAGCAGTTTCGTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAGgtatctagaacaattctctggttccaaattgtgtaaagcgatgaaaaaatcaggcaccagtatgctaatgct-tagttaatcttgactttgcttctatctag
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GATGTTGGAATATGCAAAAGCAATTCAAGAGAGTGTATATGAGCAGCTTCGTGTTGTTCGTGAAGGTCAACTTCGCATCATATTCACTCAAGACTTGAAGgttacaaaattgttattacagttaaatgtattttctagt--tgaatcttttttataatgacctcctgaaattcttgttgatatgcacag-------------
upper sequence: AT4G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G26960.1 (Glycine max), 5'ss of exon 6
GATGTTAGAATATAGAAAAGCAGTTCAGGAAACTGTACACGAGCAGTTTCGTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAGgtatctagaacaattctctggttccaaattgtgtaaagcgatgaaaaaatcaggcaccagtatgctaatgcttagttaatcttgactttgcttctatctag
|||||| |||||| |||||||||||| || | |||| | ||| | |||||||||| ||||| || || |||||||||||||| ||||||| |||||||| | | | | | | ||| | || ||| | |||| | || | || | |||| | | ||
GATGTTGGAATATGCAAAAGCAGTTCAAGAGAGTGTATATGAGTCGCTTCGTGTTGTTCGTGAAGGTCAACTTCGCATCATATTCACTCAAGACTTGAAGgttacaaaattgttattatagttaaatatattgtctatt--tgaatctttttatattcacttcctgaaattcttgttattatgcacag-------------
upper sequence: AT4G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv16s0100g00500.t01 (Vitis vinifera), 5'ss of exon 4
GATGTTAGAATATAGAAAAGCAGTTCAGGAAACTGTACACGAGCAGTTTCGTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAGgtatctagaacaattctctggttccaaattgtgtaaagcgatgaaaaaatcaggcaccagtatgctaatgcttagttaatcttgactttgcttctatctag
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GATGTTAGAATATGGGAAAGCAGTTCAGGAGAGTGTATATGAGCAACTCCGAGTTGTTCGTGAGGGTCAGCTTCGTATCATATTTACCCCTGATTTAAAGgt-taaacaaaagctatctgattagtatttatt---gcctgctcacttattttataaaataacttcatttctatgcatgtaatgattcag-----------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|47829975|gb|CK119659.1|CK119659EST: GTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAG ATACTTTCTTGGGAGTTTTGCGCTCGGCGTCATGAAGAGCTTCTTCTTCGC
genomic: GTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAGgtatctagaa ... ttctatctagATACTTTCTTGGGAGTTTTGCGCTCGGCGTCATGAAGAGCTTCTTCTTCGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGTTAGAATATAGAAAAGCAGTTCAGGAAACTGTACACGAGCAGTTTCGTGTTGTCCGTGAGGGCCATCTTCGCATCATATTTTCTCAAGATTTGAAGgtatctagaacaattctctggttccaaattgtgtaaagcgatgaaaaaatcaggcaccagtatgctaatgcttagttaatcttgactttgcttctatctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG