Sequence
atgc intronic sequence ATGC exonic sequenceAATAAATGGAAGATTCGTCTTCAGCTTACAAAACCAGTCACTTGGCCTCCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAGgtaatcatacgaacctcttttggatcatgcaatactgtacagaaagttttttcattttccttccaattgtttcttctggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G51820.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G162672_T01 (Zea mays), 5'ss of exon 4
AATAAATGGAAGATTCGTCTTCAGCTTACAAAACCAGTCACTTGGCCTCCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAGgtaatcatacgaacctcttttggatcatgca----atactgtacagaaagttttttcat---tttccttccaattgtttcttctggcag-----------
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GACATATGGAAGATCCGTCTTCAACTTACTAAGCCGGTGACATGGCCTCCGCTTGTTTGGGGAGTTCTCTGTGGAGCAGCTGCCTCTGgtatgctttgctgcctataatggtttatgtctgttactctgttccttaaatgcttttgtgtctctacttcataaaaacccaacctataatgcatttttcc
upper sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G43310.1 (Glycine max), 5'ss of exon 4
AATAAATGGAAGATTCGTCTTCAGCTTACAAAACCAGTCACTTGGCCTCCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAGgt----aatcatacgaacct------cttttggat----catgcaatactgtacagaaagt---tttttcattttccttc--caattgtttcttctggcag
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AATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCATTAGTTTGGGGTGTAGTTTGTGGAGCTGCTGCTTCTGgtactaaattctatcaattagcataacattaaaatgtgacatgcatggtcacaaaaaaaattggtcctgcatgttcctgtgataattgtttacacatgtt-
upper sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA16G19340.1 (Glycine max), 5'ss of exon 1
AATAAATGGAAGATTCGTCTTCAGCTTACAAAACCAGTCACTTGGCCTCCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAGgtaatcatacgaacctcttttggatcatgc-aatactgtacagaaagttttttca---ttttccttccaattgtttcttctggcag---------------
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AATAAATGGAAGATTCGTCTTCAACTCACAAAGCCTGTCACTTGGCCTCCGTTAGTTTGGGGAGTAGTTTGTGGTGCTGCTGCCTCGGgtactaaattctatcaacta-gcataatgttaaaacttgacatgcattttcactaaaatgtttggtcctgcatattaatgtgataattgtttacacatgtt
upper sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G18470.1 (Glycine max), 5'ss of exon 4
AATAAATGGAAGATTCGTCTTCAGCTTACAAAACCAGTCACTTGGCCTCCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAGgt----aatcatacgaac-----ctcttttggatcatgcaatac-tgtacagaaagttttttcattttccttccaattgtttcttctggcag--------
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AATAAATGGAAGATTCGTCTTCAACTCACAAAGCCTGTCACTTGGCCTCCGTTAGTTTGGGGTGTAGTTTGTGGTGCTGCTGCCTCGGgtactaaattctatcaactagcataatgttaaaacttgacatgcattttcacaaaaatgtttggtccttcatattaatgtgataattgtttacacatgtt
upper sequence: AT3G51820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv08s0105g00590.t01 (Vitis vinifera), 5'ss of exon 4
AATAAATGGAAGATTCGTCTTCAGCTTACAAAACCAGTCACTTGGCCTCCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAGgtaatc-----atacgaacctcttttgga--------------tcatgcaatact-gtacagaaagttttttcattttccttccaattgtttcttctggcag
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AATAAATGGAAGATTCGTCTTCAACTTACAAAGCCTGTTACTTGGCCCCCGTTGGTTTGGGGAGTGGTTTGTGGAGCTGCTGCTTCTGgtactctgcttatatatatatattgtggaattaatattatctctggcccaacatttatgctgaacatttttgctcttacttggaatttgttaaatctttc--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|124940777|gb|EL017197.1|EL017197EST: CCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAG GGAACTTTCATTGGACCCCAGAGGATGTTGCTAAGTCGATTCTTTGCATGA
genomic: CCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAGgtaatcatac ... cttctggcagGGAACTTTCATTGGACCCCAGAGGATGTTGCTAAGTCGATTCTTTGCATGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATAAATGGAAGATTCGTCTTCAGCTTACAAAACCAGTCACTTGGCCTCCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAGgtaatcatacgaacctcttttggatcatgcaatactgtacagaaagttttttcattttccttccaattgtttcttctggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT