Sequence
atgc intronic sequence ATGC exonic sequencegttgttctttaatgggaatggtgttagaagaaacttatgaaatataaatatttgtcttgaactctggtgctgcctaattgttttttaaaactatgtatattgcaatgtttctgggttcagttgtagaagaatcatgcattttgaaaatgaaattcttatagtttgattactgtgtttgatggcatgaacagTCCCTTCAAGCTTTGAAGAAGATCTCTCTGGAGCATCCCACTGCCTGCCTACGAGCAGGTGCTCTTATGGCCGTGCTTTCTTATTTGGACTTCTTTTCAA
Basic information
species | Glycine max |
transcript | GLYMA11G11490.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G11490.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 1
gttgttctttaatgggaatggtgttagaagaaacttatgaaatataaatatttgtcttgaactctggtgctgcctaattgttttttaaaactatgtatattgcaatgtttctgggttcagttgtagaagaatcatgcattttgaaaatgaaattcttatagtttgattactgtgtttgatggcatgaacagTCCCTTCAAGCTTTGAAGAAGATCTCTCTGGAGCATCCCACTGCCTGCCTACGAGCAGGTGCTCTTATGGCCGTGCTTTCTTATTTGGACTTCTTTTCAA
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--------------------------------------------------------------gttgg--ctatcataccaatacttgaatcctcg-atgctccagctgcttttttaaaaattcttcagggatcacactt----gaaatttgattcgta----tttatgtatgtgtttta------aaacagTCTCTGCAAGCTCTCAAAAAGATATCTCAGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCTCTTATGGCTGTGCTCTCGTATCTGGATTTCTTCTCCA
upper sequence: GLYMA11G11490.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0023g03830.t01 (Vitis vinifera), 3'ss of exon 1
gttgttctttaatgggaatggtgttagaagaaacttatgaaatataaatatttgtcttgaactctggtgctgcctaattgttttttaaaactatgtatattgcaatgtttctgggttcagttgtagaagaatcatgcattttgaa-aatgaaattcttatagtttgattactgtgtttgatggcatgaacagTCCCTTCAAGCTTTGAAGAAGATCTCTCTGGAGCATCCCACTGCCTGCCTACGAGCAGGTGCTCTTATGGCCGTGCTTTCTTATTTGGACTTCTTTTCAA
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------------------------------------------------------------------------------------------tgataaagggctctttgttttctggttgggtgaaataaatttctttggctgtagctgataaaaggctcgccctttgttt--tgtttgtgacaataagtgcagTCTTTGCAAGCTCTGAAGAAGATATCCCAGGAGCAGCCTACTGCCTGTTTGCGAGCAGGTGCTCTAATGGCAGTGCTTTCTTTTCTTGACTTCTTCCCAAMapped 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|207690591|gb|GD672075.1|GD672075EST: TCTTTTGTGCCAGGTTGCTCACAATAGAATACATGGACTTGGCTGAGCAG TCCCTTCAAGCTTTGAAGAAGATCTCTCTGGAGCATCCCACTGCCTGCCTA
genomic: TCTTTTGTGCCAGGTTGCTCACAATAGAATACATGGACTTGGCTGAGCAGgttgttcttt ... gcatgaacagTCCCTTCAAGCTTTGAAGAAGATCTCTCTGGAGCATCCCACTGCCTGCCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttgaaaatgaaattcttatagtttgattactgtgtttgatggcatgaacagTCCCTTCAAGCTTTGAAGAAGATCTCTCTGGAGCATCCCACTGCCTGCCTACGAGCAGGTGCTCTTATGGCCGTGCTTTCTTATTTGGACTTCTTTTCAA
gtttgat putative branch site (score: 5)
aaaatgaaattcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgttctttaatgggaatggtgttagaagaaacttatgaaatataaatatttgtcttgaactctggtgctgcctaattgttttttaaaactatgtatattgcaatgtttctgggttcagttgtagaagaatcatgcattttgaaaatgaaattcttatagtttgattactgtgtttgatggcatgaacagTCCCTTCAAGCTTTGAAGAAGATCTCTCTGGAGCATCCCACTGCCTGCCTACGAGCAGGTGCTCTTATGGCCGTGCTTTCTTATTTGGACTTCTTTTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG