Sequence
atgc intronic sequence ATGC exonic sequence...aatattaatttattaattttattagaaatatcgatttgaacaattcgaatcttccatcattactactccattttttcatttaattaatttatttgtttagCTGTGCGACGAATTCGGAGACGAAAGAAGGAGTGGCGATAAAGAAGATTGGGAATGCGTTTGACAACAGGATCGATGCCAAGAGAACGCTCAGGGAAATC
Basic information
species | Glycine max |
transcript | GLYMA11G15590.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G15590.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g03620.t01 (Vitis vinifera), 3'ss of exon 1
aatattaatttattaattttattagaaatatcgatttgaacaattcgaatcttccatcattactactccattttttc-atttaatta--atttatttgtt-tagCTGTGCGACGAATTCGGAGACGAAAGAAGGAGTGGCGATAAAGAAGATTGGGAATGCGTTTGACAACAGGATCGATGCCAAGAGAACGCTCAGGGAAATC
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-gtgttg--caattttttatataagaattat-gacacttttggcttagagctcctaaatgtatttctttgtgattgggaattgattattattcactgactacagCTGTGCGACGAATTCCGAGACAAATAAGGAAGTCGCAATCAAGAAGATTGGGAATGCATTTGACAACAGGATTGATGCTAAAAGGACACTCCGGGAGATC
upper sequence: GLYMA11G15590.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ04892 (Selaginella moellendorffii), 3'ss of exon 1
aatattaatttattaattttattagaaatatcgatttgaa-caattcgaatcttccatcattactactc-cattttttcatttaattaatttatttgtttagCTGTGCGACGAATTCGGAGACGAAAGAAGGAGTGGCGATAAAGAAGATTGGGAATGCGTTTGACAACAGGATCGATGCCAAGAGAACGCTCAGGGAAATC
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---gtgagtgtgct--ccttcctccgcctcccaattggggtcgatttgccccttgcctgctctcaaagctcgccgtctcat---gccaagtttcacgcacagCTCTGCAGTGAACAGCGAGACCAACGAAGAAGTTGCTATCAAGAAAATCGGCAATGCCTTTGACAACAGGATCGATGCCAAGCGCACATTGCGCGAGATCMapped 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|8282912|gb|BE020473.1|BE020473EST: TACGCTCCCCCTCTCCAACCCGTTGGTCGCGGCGCATACGGCATCGTTTG CTGTGCGACGAATTCGGAGACGAAAGAAGGAGTGGCGATAAAGAAGATTGG
genomic: TACGCTCCCCCTCTCCAACCCGTTGGTCGCGGCGCATACGGCATCGTTTGgttcgctcac ... atttgtttagCTGTGCGACGAATTCGGAGACGAAAGAAGGAGTGGCGATAAAGAAGATTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgaatcttccatcattactactccattttttcatttaattaatttatttgtttagCTGTGCGACGAATTCGGAGACGAAAGAAGGAGTGGCGATAAAGAAGATTGGGAATGCGTTTGACAACAGGATCGATGCCAAGAGAACGCTCAGGGAAATC
aattaat putative branch site (score: 3)
tttattt CT-rich tract
attactactccatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatattaatttattaattttattagaaatatcgatttgaacaattcgaatcttccatcattactactccattttttcatttaattaatttatttgtttagCTGTGCGACGAATTCGGAGACGAAAGAAGGAGTGGCGATAAAGAAGATTGGGAATGCGTTTGACAACAGGATCGATGCCAAGAGAACGCTCAGGGAAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccatcat