Sequence
atgc intronic sequence ATGC exonic sequenceGGCTGTTGACAAAGAAGTTCATCAATTTGATCAAACAAGCTGAGGATGGTATCCTTGATCTGAATAAAGCTGCTGACACATTAGAGgttaatataatttcatctgctcaaatgattccatgctgtaaagttttattattttcttttcggtatccgcag
Basic information
species | Glycine max |
transcript | GLYMA12G09860.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G09860.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G22220.2 (Arabidopsis thaliana), 5'ss of exon 4
GGCTGTTGACAAAGAAGTTCATCAATTTGATCAAACAAGCTGAGGATGGTATCCTTGATCTGAATAAAGCTGCTGACACATTAGAGgtta-atat---aatttcatctgctcaaatg-----attccatgctgtaaagttttattattttcttttcggtatccgcag
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GTCTTTTGACAAAGAAATTTATCAATTTGATAAAACAAGCAGAGGATGGTATTCTTGATCTAAACAAAGCAGCTGATACTTTAGAGgtgacatatttgaactctagactcccatattgatgtattactttctgtcaaacttagctgtatg--ttcctgttgatgcag
upper sequence: GLYMA12G09860.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0080g01110.t01 (Vitis vinifera), 5'ss of exon 4
GGCTGTTGACAAAGAAGTTCATCAATTTGATCAAACAAGCTGAGGATGGTATCCTTGATCTGAATAAAGCTGCTGACACATTAGAGgttaatataatttcatctgctcaaatgattccatgctgtaaagttttattatttt---cttttcggtatccgcag
| || ||||||||||||||||| |||||||| ||||| || || |||||||| |||||||| ||||||||||| ||||| |||||||| ||| | | | ||| || | || ||| | | | | || | |||| | | |||
GTCTCTTGACAAAGAAGTTCATTAATTTGATTAAACATGCAGAAGATGGTATTCTTGATCTAAATAAAGCTGCCGACACTTTAGAGgt-gctattttatatctaacgcaatatatcctgtggcataacatcctgtcaattgaaacgtttccattatcacag
upper sequence: GLYMA12G09860.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ05692 (Selaginella moellendorffii), 5'ss of exon 3
GGCTGTTGACAAAGAAGTTCATCAATTTGATCAAACAAGCTGAGGATGGTATCCTTGATCTGAATAAAGCTGCTGACACATTAGAGgttaatata-atttcatctgctcaaatgattccatgctgtaaagttttatt-attttcttttcggtatccgcag
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GTCTTTTGACGAAGAAGTTTATTGACTTACTTAAGCAAGCTGAGGATGGTGTCCTTGATCTTAACAAAGCTGCAGAGACATTGAAAgtaagtgcatgctgcattcagt-gtctgtctctttcgcaagctgcttcagagaggctttcttctgccttt-cag
upper sequence: GLYMA12G09860.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ05155 (Selaginella moellendorffii), 5'ss of exon 3
GGCTGTTGACAAAGAAGTTCATCAATTTGATCAAACAAGCTGAGGATGGTATCCTTGATCTGAATAAAGCTGCTGACACATTAGAGgttaatata-atttcatctgctcaaatgattccatgctgtaaagttttattattttcttttcggtatccgcag
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GTCTTTTGACGAAGAAGTTTATTGACTTACTTAAGCAAGCTGAGGATGGTGTCCTTGATCTTAACAAAGCTGCAGAGACATTGAAAgtaagtgcatgctgcattcagtgtgtgtctctttcgcaacctgcttcagagaggctttcttctgccttt-cagMapped 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|7588272|gb|AW704071.1|AW704071EST: AAGCTGAGGATGGTATCCTTGATCTGAATAAAGCTGCTGACACATTAGAG GTGCAAAAGATGAGGATATATGATATAACAAATGTTCTTGAAGGGATTGGC
genomic: AAGCTGAGGATGGTATCCTTGATCTGAATAAAGCTGCTGACACATTAGAGgttaatataa ... gtatccgcagGTGCAAAAGAGGAGGATATATGATATAACAAATGTTCTTGAAGGGATTGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCTGTTGACAAAGAAGTTCATCAATTTGATCAAACAAGCTGAGGATGGTATCCTTGATCTGAATAAAGCTGCTGACACATTAGAGgttaatataatttcatctgctcaaatgattccatgctgtaaagttttattattttcttttcggtatccgcag
- - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT