Sequence
atgc intronic sequence ATGC exonic sequence...tgtatcatggcaaattgacaattgcattcaacatcccattaactgcatagttggtaaattgaccttctaatcataaccagaaattgattttctggtgaagGCAAATTTCCCTAGATTGCAAGTTCTTGGAGTCTCAGCATATAATTGATTACAGCCTTCTGTTGGGATTACATTTCCGAGCTCCAGAGAATATGAAGGCC
Basic information
species | Glycine max |
transcript | GLYMA15G05150.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G05150.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 8
tgtatcatggcaaattgacaattgcattcaacatcccattaactgc----atagttggtaaattgaccttctaatcataaccagaaattgattt-tctggtgaagGCAAATTTCCCTAGATTGCAAGTTCTTGGAGTCTCAGCATATAATTGATTACAGCCTTCTGTTGGGATTACATTTCCGAGCTCCAGAGAATATGAAGGCC
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-----ttctttaatatgcccataccctagaatgttttattttttgttgttgtctctactgggtttagtaattcagcatgaattcattttcttctctcttttgcagACAAATTTCTCTAGACTGCATGTTCTTGGAATCTCAACAGATAATTGATTATAGCCTTCTGTTGGGACTACATTTTAGTGCTCCTGAGCATCTGAAGACC
upper sequence: GLYMA15G05150.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ04955 (Selaginella moellendorffii), 3'ss of exon 5
tgtatcatggcaaattgacaattgcattcaacatcccattaactgcatagttggtaaattgaccttctaatcataaccagaaattgattttctggtgaagGCAAATTTCCCTAGATTGCAAGTTCTTGGAGTCTCAGCATATAATTGATTACAGCCTTCTGTTGGGATTACATTTCCGAGCTCCAGAGAATATGAAGGCC
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--------------------------gtaagtttccttctcattcttta--tgggagttcg---ttctgacattttccttaaactgat--------gaagGCAGATAGCCTCTGATTGCAAGTTCCTCGAGTCTCAACATATAATGGATTACAGCCTCCTGTTGGGGCTTCACTTTCGAGCGCCACACTTTTATCAACCT
upper sequence: GLYMA15G05150.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ05102 (Selaginella moellendorffii), 3'ss of exon 5
tgtatcatggcaaattgacaattgcattcaacatcccattaactgcatagttggtaaattgaccttctaatcataaccagaaattgattttctggtgaagGCAAATTTCCCTAGATTGCAAGTTCTTGGAGTCTCAGCATATAATTGATTACAGCCTTCTGTTGGGATTACATTTCCGAGCTCCAGAGAATATGAAGGCC
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--------------------------gtaagtttctttctcattcttca--tgggagttcg---ttctgacattttccttaaactgat--------gaagGCAGATAGCCTCTGATTGCAAGTTCCTCGAGTCTCAACATATAATGGATTACAGCCTCCTGTTGGGGCTTCACTTTCGAGCGCCACACTTTTATCAACCTMapped 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|21677331|gb|BQ629682.1|BQ629682EST: GTTTCACATGGATAAAAAATTGCGAGAATCCCTACTCAA GCAAATTTCCCTAGATTGCAAGTTCTTGGAGTCTCAGCATATAATTGATTA
genomic: GTTTCACATGGATAAAAAATTGCGAGAATCCCTACTCAAgtaagttgct ... tctggtgaagGCAAATTTCCCTAGATTGCAAGTTCTTGGAGTCTCAGCATATAATTGATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catagttggtaaattgaccttctaatcataaccagaaattgattttctggtgaagGCAAATTTCCCTAGATTGCAAGTTCTTGGAGTCTCAGCATATAATTGATTACAGCCTTCTGTTGGGATTACATTTCCGAGCTCCAGAGAATATGAAGGCC
ttttct CT-rich tract
aaattgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtatcatggcaaattgacaattgcattcaacatcccattaactgcatagttggtaaattgaccttctaatcataaccagaaattgattttctggtgaagGCAAATTTCCCTAGATTGCAAGTTCTTGGAGTCTCAGCATATAATTGATTACAGCCTTCTGTTGGGATTACATTTCCGAGCTCCAGAGAATATGAAGGCC
- - -catggca
- - - - - - - - - - - -gcattca
- - - - - - - - - - - - - - - -catccca
- - - - - - - - - - - - - - - - - - - - aactgca
- - - - - - - - - - - - - - - - - - - - - - - - -gttggta