Sequence
atgc intronic sequence ATGC exonic sequenceGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggatatttttatactgatggcatggcttgtgtagttgtgttactcttccttatgttgtttatactttataaaaatagtttactattttc...
Basic information
species | Glycine max |
transcript | GLYMA04G29250.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os12g04500.1 (Oryza sativa), 5'ss of exon 3
GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggatatttttatactgatggcatggcttgtgt-agttgtgttactcttccttatgttgtttatactttataaaaatagtttactattttc----------------
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GAGGTTGGAGTGAACCTGATCATCACAGACTACTGCATGCCTGGCATGACAGGATATGATCTTCTCAAGAAGATCAAGgtaattaccatctctgctctatt--tgattgtaccaaccatttgatttgatctactcaagatgacagtgaggtcagttcctgaatacagttttttcccttttggtttgttcaatcag
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os11g04720.1 (Oryza sativa), 5'ss of exon 3
GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggatatttttatactgatggcatggcttgtgt-agttgtgttactcttccttatgttgtttatactttataaaaatagtttactattttc----------------
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GAGGTTGCAGTGAACCTGATCATCACAGACTACTGCATGCCTGGCATGACAGGATATGATCTTCTCAAGAAGATCAAGgtaattaccatctctgctctatt--tgattgtaccaaccatttgatttgatctactcaagatgacagtgaggtcagttcctgaatacagttttttcccttttggtttgttcaatcag
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0067g03460.t01 (Vitis vinifera), 5'ss of exon 3
GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggatatttttatactgatggcatggcttgtgtagttgtgttactcttccttatgttgttta---tactttataaaaat--agtttactattttc------------
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GGAACGAAAGTAAATTTAATTATTACATATTATTCTATGCCTGGAATGACAGGCTATGATCTCCTCAAAAAGATCAAGgtatcttc-------atttgcctaattat----tgaatttcaacatcttattattttactccaagttagtcagaacagttcattaaaattaaattttaaataaacatgaatctgcag
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ18081 (Selaginella moellendorffii), 5'ss of exon 3
GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggata--tttttatactgatggcatggcttgtgtagttgtgttactcttcc-ttatgttgtttatactttataaaaatagtttactattttc
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GGCATTCAAATCAGCATGATCATCACGGATTACTGTATGCCTCATATGACAGGCTATGATCTTCTGAAGAGAGTAAAGgtgagtgaaaaaaatcgcttttttttctttttccaaaaggaggtttaccgatttgcgggtccactggtttgatggcag-------------------------
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ26364 (Selaginella moellendorffii), 5'ss of exon 3
----------------------GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggatatttttatactgatggcatggcttgtgtagttgtgttactcttccttat-gttgtttatactttataaaaatagtttactattttc
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CTGGCTTTTGCTTTTGTTGCAGGCCATTAAAATAAACTTGATCATCACGGACTATTGTATGCCGGAAATGACAGGCTATGATCTGCTCAAGAAGGTCAAGgtacacgctttaataaattgt---ttgatgccagttgatgcatggacacagtatctatctgcatcgctgtcaacag-------------------------
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ36636 (Selaginella moellendorffii), 5'ss of exon 3
GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggatatttttatactgatggcatggcttgtgtagttgtgttactcttccttatgttgtttatactttataaaaatagtttactattttc
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GGCATTCAAATCAGCATGATCATCACGGATTACTGTATGCCTCACATGACAGGCTATGATCTTCTGAAGAGAGTAAAGgtgagtgaaaaaaatcgcttttttttctt-------ttttcgaaaggaggttaccgatttgcgggtccattgcag-------------------------
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ14702 (Selaginella moellendorffii), 5'ss of exon 3
GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggatatttttatactgatggcatggcttgtgtagttgtgttactcttccttat-gttgtttatactttataaaaatagtttactattttc
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GCCATTAAAATAAACTTGATCATCACGGACTATTGTATGCCGGAAATGACAGGCTATGATCTGCTCAAGAAGGTCAAGgtacacgctttaataaattgt---ttgatgccagttgatgcatggacacagtatctatctgcatcgctgtcaacag-------------------------Mapped 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|192327765|gb|FK022058.1|FK022058EST: ATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAAT
genomic: ATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcct ... tgacttgtagGAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAGgtaaactcctgggatatttttatactgatggcatggcttgtgtagttgtgttactcttccttatgttgtttatactttataaaaatagtttactattttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcttcc