Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttttcttttgtttttttgtgctcattctcaccttctctttgtctctgtattttccctcttctgtgcagaacttgttcttatccaagtaaggaaaaataacctattagttttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGTTTGGGTAGTTTGAATA
Basic information
species | Glycine max |
transcript | GLYMA09G34170.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G34170.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G35530.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgagtttttcttttgtttttttgtgctcattctcaccttctctttgtctctgtattttccctcttctgtgcagaacttgttcttatccaagtaaggaaaaataacctattagttttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGTTTGGGTAGTTTGAATA
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---------------gtgagttagcgtcccatcatacttcattcgttctttctcaaacggtctttgct-------acctttgcttattgtag-gaacataattgagagatga--ttttatgcagGGCAATACTACAGGCGGCACTGATGGTGATGCTAAACAATCTGAAGTGAAGGAAAAATTGCCCATCAAAAGATCAAGAGGAAGCTTGGGAAGTTTGAACA
upper sequence: GLYMA09G34170.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgagtttttcttttgtttttttgtgctcattctcaccttctct-ttgtctctgtattttccctcttctgtgcagaacttgttcttatccaagtaaggaaaaataacctattagttttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGTTTGGGTAGTTTGAATA
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-------------------------------gtgagttttctctgttatcactgtttttattagagtatgggtcagatgggatcttgcttgaagaa---------------tgttttggattcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
upper sequence: GLYMA09G34170.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 6
gtgagtttttcttttgtttttttgtgctcattctcaccttctctttgtctctgtattttccctcttctgtgcagaacttgttcttatccaagtaag---gaaaaataacctattagttttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGTTTGGGTAGTTTGAATA
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---------------------gtgagttaatt--aagctactgtatcatttggt------ctgctgctgagtaga-catattctttttcatatggatctgtagaataacttgtaaattttcatgtagGGAACCACTCCGGGAAGCATGGAAGCTGATGGTAAATCATCTGAGGGTAAGGAAAAATTGCCCATCAAAAGATCAAAAGGAAGTTTGGGCAGTTTGAATAMapped 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|6482300|gb|AW201569.1|AW201569EST: CTTTTAATCCTTTTGCCATGCCTTCTCCTAATGGCATTGCTGAGGCTTCA GGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAG
genomic: CTTTTAATCCTTTTGCCATGCCTTCTCCTAATGGCATTGCTGAGGCTTCAgtgagttttt ... tttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcagaacttgttcttatccaagtaaggaaaaataacctattagttttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGTTTGGGTAGTTTGAATA
aaataac putative branch site (score: 2)
ttttcat putative PPT
aaaaataacctatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttttcttttgtttttttgtgctcattctcaccttctctttgtctctgtattttccctcttctgtgcagaacttgttcttatccaagtaaggaaaaataacctattagttttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGTTTGGGTAGTTTGAATA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA