Sequence
atgc intronic sequence ATGC exonic sequenceTGAGGCAGCGGCGCTCGGAGCCGTCGGATCCGTCACCATCAGAACCGTACACGAAGCTGGACAAGCCCGAGAAAGCGGAGGAGAAAGACGAAGGCTTGGGgtgggtttttccgtttgtggctcttggattattgaggtacatgagtgccacctccaacatcatccacgattgcgacgaggtcttcaattactgggagccc...
Basic information
species | Glycine max |
transcript | GLYMA12G35830.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G35830.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g11070.1 (Oryza sativa), 5'ss of exon 1
--TGAGGCAGC--GGCGCTCGGAGCCGTCG-GATCCGTCACCATCAGAA--CCGTACACGAAGCTGGACAA-GCCCGAGAAAGCGGAGGAGAAAGACGAAGGCTTGGGgtgggtttttccgtttgtggctcttggattattgaggtacatgagtgccacctccaacatcatccacgattgcgacgaggtcttcaattactgggagccc-
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CGTCCTCCAACCTGATCCACGACTGCGACGAGGTGTTCAACTACTGGGAGCCCCTCCACTTCCTCCTCTACCGCTCCGGCTTCCAGACCTGGGAG-TACAGgtctcgctt---ttttctcgcttcactctccctaa--actaaaccctagctgtacag--ttcgttttgatgctcgat-gcgcgggcggaatcgcggaccgggattgca
upper sequence: GLYMA12G35830.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G051262_T01 (Zea mays), 5'ss of exon 1
--TGAGGCAGC--GGCGCTCGGAGCCGTCG-GATCCGTCACCATCAGAACCGTACACGAAGCTGGACAAGCCCGAGAAAGCGGAGGAGAAAGACGAAGGCTTGGGgtgggtttttccgtttgtggctcttggatt-attgaggtacatgagtgccacctccaacatcatccacgattgc-gacgaggtcttcaatt--actgggagccc
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CGTCCTCCAACCTGATCCACGACTGCGACGAGGTCTTCAACTACTGGGAGCCCCTCCACTTCCTCCTCTACC----GCTCCGGCTTCCAGACATGGGAGTACAGg-tagcctctccgacctcacccccatagacccgcctgcgcctgccatttcggctacttgatgctcctgggcgtactggcagagtttggacttgtgctctga----
upper sequence: GLYMA12G35830.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S478_15V6.1 (Physcomitrella patens), 5'ss of exon 1
TGAGGCAGCGGCGCTCGGAGCCGTCGGATCCGTCACCATCAGAACCGT-ACACGAAGCTGGACAAGCCCGAGAAAGCGGAGGAGAAAGACGAAGGCTTGGGgtgggtttttccgtttgtggctct--tggattattgaggtacatgagtgccacctccaacatcatccacgattg--cgacgaggtcttcaattactgggagccc--
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-------TTGTCTATAATAATATTCACGACTGCGACGAGGTGTTCAATTACTGGGAGCCGCTTCACTACCTTCTTTACAAGTCCGGGTTCCAAACCTGGGAGTACAGgtaactaatcgtcgttctactgaatcagagagagggagagcctgtcgttttggcttagggcgaaattcacctatgaaaattcgatttctttttgaaacaa
upper sequence: GLYMA12G35830.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ13347 (Selaginella moellendorffii), 5'ss of exon 1
TGAGGCAGCGGCGCTCGGAGCCGTCGGATCCGTCACCAT-CAGAACCGTACACGAAGCTGGACAAGCCCGAGAAAGCGGAGGAGAAAGACGAAGGCTTGGGgtgggtttttccgtttgtggctcttggattattgaggtacatgagtgccacctccaacatcatccacgattgcgacgaggtcttcaattactgggagccc
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-----------------------CGAGCTCCAACATCGTACACGACTGCG-ACGAGGTTTT-CAATTACTGGGAGCCGCTGCATTT--TCTTCTCTATGGATCGGGATTTCAAACTTG-GGAGTACAGgtgagtgagagctttagagagtgtctgt----tctctcgctaaaataattggagtttcgtttctctggactagMapped 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|192332079|gb|FK024567.1|FK024567EST: GCGAAGCTGGACAAGCCCGAGAAAGCGGAGGAGAAAGACGAAGGCTT--G GAATGGATTTAACAATTTCAACTTTTGTTTTGTTCTTGCTCTGCTGTTCTT
genomic: ACGAAGCTGGACAAGCCCGAGAAAGCGGAGGAGAAAGACGAAGGCTTGGGgtgggttttt ... attatctgagGAATGGATTTAACAATTTCAACTTTTGTTTTGTTCTTGCTCTGCTGTTCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGGCAGCGGCGCTCGGAGCCGTCGGATCCGTCACCATCAGAACCGTACACGAAGCTGGACAAGCCCGAGAAAGCGGAGGAGAAAGACGAAGGCTTGGGgtgggtttttccgtttgtggctcttggattattgaggtacatgagtgccacctccaacatcatccacgattgcgacgaggtcttcaattactgggagccc
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacctcc