Sequence
atgc intronic sequence ATGC exonic sequence...acacttatttgtgagattttggaatatatttcaatattttaagttaatcccaaactttgcagttcagaacttcaaattaaattcaatttgtatggtgcagGACCCTGATGATACTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATGACCAAGTCTTCCAATGTCGAAGTGATTGTTGACAGAATGATTGATTACA
Basic information
species | Glycine max |
transcript | GLYMA16G20260.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G20260.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 3
--acacttatttgtgagattttggaatatatttcaatattttaagttaatcccaaactttgcagttcagaacttcaaattaaattcaatttgtatggt--gcagGACCCTGATGATACTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATGACCAAGTCTTCCAATGTCGAAGTGATTGTTGACAGAATGATTGATTACA
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gtgagctgaagcaagagaattt----ttttttttttttttttcatgtgagct--aattgtttgttttcttgcctgatgttcgtttcgttgctactgttcaacagGATCCAGATGATACACTAAAGAGGAAGACTTTTGAATTGTTGTACAAAATGACCAAGTCGTCTAATGTAGAAGTGATTGTCGACCGAATGATTGATTACA
upper sequence: GLYMA16G20260.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 4
----acacttatttgtgagattttggaatatatttcaatattttaagttaatcc-caaactttgcagttcagaacttcaaattaaattcaatttgtatggtgcagGACCCTGATGATACTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATGACCAAGTCTTCCAATGTCGAAGTGATTGTTGACAGAATGATTGATTACA
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atgttccctttcctattaatgcttatcaagaaagaaaaattgataagttggtgtatcttctttgtattttaa---tccaagtttgatgtgctt--gatgacacagGACCCAGATGATACTCTAAAGCGAAAAACCTTTGAGCTACTATATAGAATGACCAAGTCTTCAAATGTGGAAGTGATTGTTGATCGTATGATTGATTACAMapped 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|193680336|gb|FK624844.1|FK624844EST: CCACATGTTGTCTAGAACAGCATCAACTGGCTGTCATTGACTGCTTAGAG GACCCTGATGATACTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATG
genomic: CCACATGTTG-C-AGAACAGCATCAACTGGCTGTCATTGACTGCTTAGAGgtgaggatct ... tatggtgcagGACCCTGATGATACTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcccaaactttgcagttcagaacttcaaattaaattcaatttgtatggtgcagGACCCTGATGATACTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATGACCAAGTCTTCCAATGTCGAAGTGATTGTTGACAGAATGATTGATTACA
agttaat putative branch site (score: 4)
ttcaaattaaattcaa 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acacttatttgtgagattttggaatatatttcaatattttaagttaatcccaaactttgcagttcagaacttcaaattaaattcaatttgtatggtgcagGACCCTGATGATACTCTGAAGCGAAAAACTTTTGAACTACTCTACAAAATGACCAAGTCTTCCAATGTCGAAGTGATTGTTGACAGAATGATTGATTACA
- - - - - - - - - - - - - - - - - - - - - - - - -ccaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcagtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaaa