Sequence
atgc intronic sequence ATGC exonic sequence...ataagaggggtgttgcgttctgattttgttattataatccataactgcagttaagagactgctttcaattgaaatgttttgcctggcttccttgttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
Basic information
species | Glycine max |
transcript | GLYMA08G26320.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G26320.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g40700.2 (Oryza sativa), 3'ss of exon 1
--ataagaggggtgttgcgttctgattttgttatt-ataatccataactgcagttaagagactgcttt-caattgaaatgttttgcctggcttccttgttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
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ttatctgaatgaaattatatacgtattgcatcctttaaaatttgta--tatatttctcaacttgcaagaccattgaatgaatatactt--cttaactattgcagGTATAGAGACAATAGGCATGTGAGCATGGGTGCTGAGAAATGGCTTGATATCGAATTATGGAGCTCAACTGCAGAATGCTTTGATGCTTTAAAAAAGCGT
upper sequence: GLYMA08G26320.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G026869_T01 (Zea mays), 3'ss of exon 1
ataagaggggtgttgcgttctgattttgttattataatccataactgcagttaagagactgctttcaattgaaatgttttgcct-----ggcttccttg---ttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
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----taagggtgaaaattcacaagtttgatattacatccttttg----aaatgataggttccactcaagtaaactgttcttcattcaaatgcttctttgctttttcagGTATAGAGACAACAGGCATGTGAGCATGGGTGCTGAGAAATGGCTTGACATTGAGATATGGAACTCACCTGCAGAATGTTTCAGTGCATTAAAAAAACGC
upper sequence: GLYMA08G26320.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G15390.1 (Arabidopsis thaliana), 3'ss of exon 2
ataagaggggtgttgcgttctgattttgttattataatc-cataactgcagttaagagactgctttcaattgaaatgttt-tgcctggcttccttgt-----tgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
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-------atccattagttgttgactgaaatgtaaaaaaggtttgattgcattgtgtgaattcatttaccgtgctatgtgtgtgttaatgtatattatatatgtgtagGTATAACGGAAATCGCCATGTGAGTATGGGAGCTGAGAAATGGCTGGACATTGAGTTTTGGGACACACCTAAAGAATGTTTCAAAGTTTTGAAGTCTCGC
upper sequence: GLYMA08G26320.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 1
ataagaggggtgttgcgttctgattttgttattataatccataactgcagt-taagagactgctttcaattgaaatgttt--------tgcctggcttccttgttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
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--------gatgttgccgtacc-ttttttctttctagacctctttttcagtgtaggataccccgagtcaagaatatccttgctaaagtcaccatccattctttttccagGTACAAAGACAATCGCCATGTTAGCATGGGAGCTGAGAAATGGTTAGATATTGAACTTTGGAATTCCACACAAGAGTGCTTTGAAGTTCTGAAATCACGTMapped 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|120530667|gb|EH258800.1|EH258800EST: GCGCTTGGCGTCCAGTCCGTCCACGTCGTGTCGTGTGACGCCAACAAAAG GTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACAT
genomic: GCGCTTGGCGTCCAGTCCGTCCACGTCGTGTCGTGTGACGCCAACAAAAGgtgttgttga ... cttgttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcagttaagagactgctttcaattgaaatgttttgcctggcttccttgttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
cttccttgtt CT-rich tract
aattgaaatgtttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataagaggggtgttgcgttctgattttgttattataatccataactgcagttaagagactgctttcaattgaaatgttttgcctggcttccttgttgcagGTATAAAGATAATCGCCATGTGAGCATGGGTGCAGAGAAATGGTTGGACATTGAACTGTGGGACTCTACAAAGGAGTGCTTTAAAATGTTGAAATCACGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - -gggtgtt
- - - - - - - - - - - - - - - - - - - - - -actgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttttgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggcttc