Sequence
atgc intronic sequence ATGC exonic sequencegtatgctacaaaatatgcatttattaacattagatgtgcttgtgaagacaacttcattgatggtagcatttaagtttaaagttttaaacattttcttttcctattttttttcctcgtgttagACCTGGATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAAAGCCTTATCCTCTGGACATGAGAGGCGAACTTGATGACACTGCTGCTTT
Basic information
species | Glycine max |
transcript | GLYMA15G42140.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G42140.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv01s0127g00260.t01 (Vitis vinifera), 3'ss of exon 7
gtatgctacaaaatatgcatttattaacattagatgtgcttgtgaagacaacttcattgatggtagcatttaagtttaaagttttaaacattttcttttc--ctattttttttcctcgtgttagACCTGGATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAAAGCCTTATCCTCTGGACATGAGAGGCGAACTTGATGACACTGCTGCTTT
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--------------gtatatctat-aatcttcaagaaattcat----attattttatagttgctaa---acaactttatgatctgttataatttgccatcaactctaaatttttcatttgccagATCTGGACTTCACTTTCCTAGAGATGAATCCTTTTACATTGGTTGATGGAAAGCCTTATCCTTTGGATATGAGAGGCGAGCTGGACGATACTGCTGCTTT
upper sequence: GLYMA15G42140.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ27687 (Selaginella moellendorffii), 3'ss of exon 5
gtatgctacaaaatatgcatttattaacattagatgtgcttgtgaagacaacttcattgatggtagcatttaagtttaaagttttaaacattttcttttcctattttttttcctcgtgtt-agACCTGGATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAAAGCCTTATCCTCTGGACATGAGAGGCGAACTTGATGACACTGCTGCTTT
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--------------------------------------------------------------gt-gcactgccttacgaaacagcctgcattcttatttacaaggcgaatttttctttttcagACTTGGACTTCTCTCTGATCGAGATGAATCCCTTCACTTTGGTGAATGGCGAACCGTATCCTCTGGACATGCGTGGAGAGTTGGATGACACAGCTCTCTT
upper sequence: GLYMA15G42140.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ37257 (Selaginella moellendorffii), 3'ss of exon 5
gtatgctacaaaatatgcatttattaacattagatgtgcttgtgaagacaacttcattgatggtagcatttaagtttaaagttttaaacattttcttttcctattttttttcctcgtgtt-agACCTGGATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAAAGCCTTATCCTCTGGACATGAGAGGCGAACTTGATGACACTGCTGCTTT
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--------------------------------------------------------------gt-gcactgccttatgaaacagcctgcattcttatttacaaggcgaatttttctttttcagACTTGGACTTCTCTCTGATCGAGATGAATCCCTTCACTTTGGTGAATGGCGAACCGTATCCTCTGGACATGCGTGGAGAGTTGGATGACACAGCTCTCTTMapped 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|10845800|gb|BF068842.1|BF068842EST: CAAGGGAGAAATTGAGGAATTTCTCAAGGTGATTTTCACTCTATTTCAAG ACCTGCATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAG
genomic: CAAGGGAGAAATTGAGGAATTTCTCAAGGTGATTTTCACTCTATTTCAAGgtatgctaca ... ctcgtgttagACCTGGATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAA
EST:
gi|6963952|gb|AW432645.1|AW432645EST: CAAGGGAGAAATTGAGGAATTTCTCAAGGTGATTTTCACTCTATTTCAAG ACCTGGATTNTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAA
genomic: CAAGGGAGAAATTGAGGAATTTCTCAAGGTGATTTTCACTCTATTTCAAGgtatgctaca ... ctcgtgttagACCTGGATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttaagtttaaagttttaaacattttcttttcctattttttttcctcgtgttagACCTGGATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAAAGCCTTATCCTCTGGACATGAGAGGCGAACTTGATGACACTGCTGCTTT
ttttaaacattttctt CT-rich tract
tttaaagttttaaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctacaaaatatgcatttattaacattagatgtgcttgtgaagacaacttcattgatggtagcatttaagtttaaagttttaaacattttcttttcctattttttttcctcgtgttagACCTGGATTTTACTTTCTTGGAGATGAATCCTTTCACTTTGGTCAATGGAAAGCCTTATCCTCTGGACATGAGAGGCGAACTTGATGACACTGCTGCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT