Sequence
atgc intronic sequence ATGC exonic sequence...ccagagtgaaattcaagatctgctttactagtatcttggaaaaaatctaaacatctgagtttttcttaactatgcatactgtgtttctattatcattcagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAAAACAACTTCACACCTGATGGAATTCAGTCTCTGACAAACAACCTTTGTTATACATATG
Basic information
species | Glycine max |
transcript | GLYMA10G38770.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 17
ccagagtgaaattcaagatctgctttactagtatcttggaaaaaatctaaacatctgagtttttcttaact-atgcatactgtgtttctattatcatt-cagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAAAACAACTTCACACCTGATGGAATTCAGTCTCTGACAAACAACCTTTGTTATACATATG
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--aacactcactttaggaggctctcatttgtcagtttctaactaacatgtgctttcagaacttttggaatggatgagtcattattttctttctttgtggcagGGGACAAGTAGGCCTGCTCATTACCATGTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATG
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 20
lower sequence: EFJ24991 (Selaginella moellendorffii), 3'ss of exon 20
ccagagtgaaattcaagatctgctttactagtatcttggaaaaaatctaaacatctgagtttttcttaactatgcatactg--tgtttctattatcattcagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAAAACAACTTCACACCTGATGGAATTCAGTCTCTGACAAACAACCTTTGTTATACATATG
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--------------------------------------------gtacgaaggcacagcgtcaacctgattgaggctgatggttgtgactgcgaccctgcagGGAACTAGTCGGCCGGCACATTATCATGTGCTTTGGGATGAAAACACTTTCACGGCTGATGGTTTGCAGTCATTAACGAACAACCTATGCTACAC-----
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 20
lower sequence: EFJ15357 (Selaginella moellendorffii), 3'ss of exon 20
ccagagtgaaattcaagatctgctttactagtatcttggaaaaaatctaaacatctgagtttttcttaactatgcatactg--tgtttctattatcattcagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAAAACAACTTCACACCTGATGGAATTCAGTCTCTGACAAACAACCTTTGTTATACATATG
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--------------------------------------------gtacgaaggcacagcgttaacctgattgaggctgatggtcgtgactgcgaccctacagGGAACTAGTCGGCCGGCACATTATCATGTGCTTTGGGATGAAAACACTTTCACGGCTGATGGTTTGCAGTCATTAACGAACAACCTATGCTACAC-----Mapped 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|19937592|gb|BQ081352.1|BQ081352EST: GCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAG GGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAA
genomic: GCCATCCAACAGAATTTGATTTTTATCTCTGCAGCCATGCTGGCATCCAGgtagaagata ... tatcattcagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaaacatctgagtttttcttaactatgcatactgtgtttctattatcattcagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAAAACAACTTCACACCTGATGGAATTCAGTCTCTGACAAACAACCTTTGTTATACATATG
tcttaac putative branch site (score: 2)
tttctatt putative PPT
tttttcttaactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccagagtgaaattcaagatctgctttactagtatcttggaaaaaatctaaacatctgagtttttcttaactatgcatactgtgtttctattatcattcagGGTACTAGTCGGCCAGCTCATTATCATGTCCTGTGGGATGAAAACAACTTCACACCTGATGGAATTCAGTCTCTGACAAACAACCTTTGTTATACATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - tctgctt
- - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - -catctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatact