Sequence
atgc intronic sequence ATGC exonic sequencegtaaactcagtcacccttttcctttttcattttcttgttttgatatctctgtctgtccatttttttatgatgaacatgggatattaattcgtatagcttttgttaattgcatgtggaacatggtgcagCTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAGTGAGTCCTCCCCAACCAATGGAGATTAGGATTAAGGTTGTCTCCACCTC
Basic information
species | Glycine max |
transcript | GLYMA09G29070.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G29070.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G24760.3 (Arabidopsis thaliana), 3'ss of exon 1
----gtaaactcagtcacccttttcctttttcattttcttgttttgat--atctctgtctgtccatttttttatgatgaacatggg--------atattaattcgtatagcttttgttaattgcatgtggaacatggtgcagCTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAGTGAGTCCTCCCCAACCAATGGAGATTAGGATTAAGGTTGTCTCCACCTC
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gtaagaaaatttgggagaacaatgtcggcttcttcttcctcctttgaacaacctcaagtcataacctgcaacggtataaaaaaaggttttttttgtatttgttgatgaaagATTAGGGTTTTTGAT-TGAGAAATTCTGTAGCGGCGGTGGCATGGCGTGCTGGTGAGCCATTGGTTATGGAGGAAGTTGAAGTGAGTCCACCTCAACCACT------------------------------
upper sequence: GLYMA09G29070.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G24760.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaaactcagtcacccttttcctttttcattttcttgttttgatatctctgtctgtccatttttttatgatgaacatgggatattaattcgtatagcttttgttaattgcatgtggaacatggtgcagCTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAGTGAGTCCTCCCCAACCAATGGAGATTAGGATTAAGGTTGTCTCCACCTC
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-----------------------------------------------------------gtataaaaaaaggttttttttgtatttgttgatgaaagattagggtttttgat-tgagaaattctgtagCGGCGGTGGCATGGCGTGCTGGTGAGCCATTGGTTATGGAGGAAGTTGAAGTGAGTCCACCTCAACCACTTGAGATCAGAATTAAAGTTGTATGTACATC
upper sequence: GLYMA09G29070.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0039g00320.t01 (Vitis vinifera), 3'ss of exon 1
gtaaactcagtcacccttttcctttttcattttcttgttttgatatctctgtctgtccatttttttatgatgaacatgggatattaattcgtatagcttttgttaattgcatg--tggaacatggtgcagCTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAGTGAGTCCTCCCCAACCAATGGAGATTAGGATTAAGGTTGTCTCCACCTC
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---------------gtaagaacttgccgcatcgttgcttcaaaatctccat------aatttttcccgataaattaatgaactt--tttgtattcatgttcataaataaataaataaataaatatatagCTGCTGTGGGATATGGAGCTGGAGAGGCATTGGTGATAGAAGAAGTGGAAGTCAGCCCGCCACAGCCTATGGAGATTAGGATTAAAGTTGTCTCCACTTCMapped 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|192324003|gb|FK019294.1|FK019294EST: TCTTCTTTCACTCATCAACATGTCTTCCCCTCAAGTCATTACCTGCAAAG CTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAG
genomic: TCTTCTTTCACTCATCAACATGTCTTCCCCTCAAGTCATTACCTGCAAAGgtaaactcag ... catggtgcagCTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAG
EST:
gi|209727032|gb|BW680326.1|BW680326EST: TCTTCTTTCACTCATCAACATGTCTTCCCCTCAAGTCATTACCTGCAAAG CTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAG
genomic: TCTTCTTTCACTCATCAACATGTCTTCCCCTCAAGTCATTACCTGCAAAGgtaaactcag ... catggtgcagCTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatgggatattaattcgtatagcttttgttaattgcatgtggaacatggtgcagCTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAGTGAGTCCTCCCCAACCAATGGAGATTAGGATTAAGGTTGTCTCCACCTC
atattaattcgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaactcagtcacccttttcctttttcattttcttgttttgatatctctgtctgtccatttttttatgatgaacatgggatattaattcgtatagcttttgttaattgcatgtggaacatggtgcagCTGCAGTGGCATGGAGAGCTGGGGAAGCATTGGTGATGGAGGAAGTAGAAGTGAGTCCTCCCCAACCAATGGAGATTAGGATTAAGGTTGTCTCCACCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT