Sequence
atgc intronic sequence ATGC exonic sequencegtgctatattgttactgaaggagatatattaaattgttgattatgtgtgtatttggttacatgatatgccatactatatttatggtgctcctggctggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTAAAAAAAGCAGCTGAGGCACTACATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
Basic information
species | Glycine max |
transcript | GLYMA07G18160.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 3'ss of exon 5
--------gtgcta--tattgttactgaaggagat--atattaaattgtt-----gattatgtgtgtattt-ggttacatgatatgccatactatatttatggtgctcctggctggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTAAAAAAAGCAGCTGAGGCACTACATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
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gttcatttgtgctggttattgttgtctacttgtcttcatgcaaagcttttctaaagaatacatgtacacttcgggtagttggca-gtgttagtggcctgacaagtcatctaattgttt--ttcagGAAGCAACTGAACTAGGTAAAAAGGCAAGAGATCTAAAGAAAGCAGCTGATGCACTTCACCAGGAAGAACGAAGTGGTGCTAAGGGAAGGAAGTGGAGGA
upper sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgctatattgttactgaaggagatatattaaattgttgattatgtgtgtatttggttacatgatatgcca--tactatatttatggtgctcctggct------ggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTAAAAAAAGCAGCTGAGGCACTACATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
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-----------------------gtctggttattgttctcctctggaagcatctctctagatcttgagtcaatccctctgtctcttgcatgattaactccataaatatattacagGAGGCAACCGAACTAGGTAAAAAGGCAAGAGAACTAAAGAAAGCAGCTGATGGACTTCATCAGGAAGAAAGAAGTGGTGCTAAGGGCAGGAAATGGCGGA
upper sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 5
-------gtgctatattgttactgaaggag-atatattaaattgttgattatgtgtgtattt--ggttacatgatatgccatact---atatttatggtgctcctggctggtta-----------ctgtagGAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTAAAAAAAGCAGCTGAGGCACTACATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
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gtgctgctttttttctttttaatagtgcatcgtgtatccatttga-aattatctaaatatttttggttatgtgatgatggatatttgcatgtttcaatcacttatggatggttgtcattgatatcctgtagGAAGCCACTGAACTAGGTAAAAAGGCAAGAGACTTGAAGAAAGCGGCTGATGCGCTCCATCAGGAAGAAAGAAGTGGTTCCAAGGGTAGAAAGTGGCGTAMapped 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|21678030|gb|BQ630381.1|BQ630381EST: CATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAG GAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTNNNNNNNGCAGCTGAG
genomic: CATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCGCAGTATATCAAGgtgctatatt ... gttactgtagGAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTAAAAAAAGCAGCTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggttacatgatatgccatactatatttatggtgctcctggctggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTAAAAAAAGCAGCTGAGGCACTACATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
atactatatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctatattgttactgaaggagatatattaaattgttgattatgtgtgtatttggttacatgatatgccatactatatttatggtgctcctggctggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCAAGAGAACTAAAAAAAGCAGCTGAGGCACTACATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
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