Sequence
atgc intronic sequence ATGC exonic sequence...caacggaaaaacaaacacctaattattttactttcactttcaatggaaaaaaataaaaatctcaagtctctctgcccattttttgtttaccatattaaagGTACCCAAATACACCAGGAATTTGGACAAGAGAACAAGTGGAAGCATGGAAACCAATTGTGAGAGCCGTTCATGAAAATGGGGGCATATTCTTTTGCCAA
Basic information
species | Glycine max |
transcript | GLYMA06G01950.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G01950.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ07431 (Selaginella moellendorffii), 3'ss of exon 2
caacggaaaaacaaacacctaattattttactttcactttcaatggaaaaaaataaaaatctcaagtctctctgcccattttttgtttaccatat-taaagGTACCCAAATACACCAGGAATTTGGACAAGAGAACAAGTGGAAGCATGGAAACCAATTGTGAGAGCCGTTCATGAAAATGGGGGCATATTCTTTTGCCAA
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--------------------------------------------gtgagagtttggagattctttttaatccaagcgtctgtacggttgtcttttacacagGTACTCTTGTACACCCGGAATCTGGACGCAAGAACAAGTAGAGGCCTGGAAACCGATTGTGAAAGCCGTTCATGACAAGGGTGCTGTGTTTTTTCTTCAA
upper sequence: GLYMA06G01950.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19876 (Selaginella moellendorffii), 3'ss of exon 2
caacggaaaaacaaacacctaattattttactttcactttcaatggaaaaaaataaaaatctcaagtctctctgcccattttttgtttaccatattaaagGTACCCAAATACACCAGGAATTTGGACAAGAGAACAAGTGGAAGCATGGAAACCAATTGTGAGAGCCGTTCATGAAAATGGGGGCATATTCTTTTGCCAA
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--------------------------------------------gtgagagtttggagattctttctaatccaacgtctgtacggttgtcttttacacagGTACCCTTGTACACCCGGAATCTGGACGCAAGAACAAGTAGAGGCCTGGAAACCGATTGTGAAAGCCGTTCATGACAAGGGTGCTGTGTTTTTTCTTCAA
upper sequence: GLYMA06G01950.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19996 (Selaginella moellendorffii), 3'ss of exon 2
caacggaaaaacaaacacctaattattttactttcactttcaatggaaaaaaataaaaatctcaagtctctctgcccattttttgtttaccatat-taaagGTACCCAAATACACCAGGAATTTGGACAAGAGAACAAGTGGAAGCATGGAAACCAATTGTGAGAGCCGTTCATGAAAATGGGGGCATATTCTTTTGCCAA
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--------------------------------------------gtgagagtttggagatcctttttaatccaagcgtctgtacggttgtcttttacacagGTACTCTTGTACACCCGGAATCTGGACGCAAGAACAAGTAGAGGCCTGGAAACCGATTGTGAAAGCCGTTCATGCCAAGGGTGCTGTATTTTTTCTTCAAMapped 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|6502019|gb|AW203392.1|AW203392EST: GGTGGATTTTTGATTGGGGAAGCCTCGGGGGTGTCAGACACTGCACAAGG GTACCCAAATACACCAGGAATTTGGACAAGAGAACAAGTGGAAGCATGGAA
genomic: GGTGGATTTTTGATTGGGGAAGCCTCGGGGGTGTCAGACACTGCACAAGGgtaatcttcc ... catattaaagGTACCCAAATACACCAGGAATTTGGACAAGAGAACAAGTGGAAGCATGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaaaaataaaaatctcaagtctctctgcccattttttgtttaccatattaaagGTACCCAAATACACCAGGAATTTGGACAAGAGAACAAGTGGAAGCATGGAAACCAATTGTGAGAGCCGTTCATGAAAATGGGGGCATATTCTTTTGCCAA
attttttgtttaccat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caacggaaaaacaaacacctaattattttactttcactttcaatggaaaaaaataaaaatctcaagtctctctgcccattttttgtttaccatattaaagGTACCCAAATACACCAGGAATTTGGACAAGAGAACAAGTGGAAGCATGGAAACCAATTGTGAGAGCCGTTCATGAAAATGGGGGCATATTCTTTTGCCAA
- - - - - -caaacac
- - - - - - - - - - - - - - - ctttcac
- - - - - - - - - - - - - - - - - - - - - - - aaaaaaa