Sequence
atgc intronic sequence ATGC exonic sequencegttggcagaaattgttttcagtaattattgttttatattttataatagaaatacgaactcttgaatatggtcctatcttcagAAATGGGATGATCACCCTGCAATAATGGCTGTTGGTGTGGTTGATGGAACTTCAGAAGCCATCTTCCAGACTCTTATGTCGCTTGGTCCTTCAAGATCAG
Basic information
species | Glycine max |
transcript | GLYMA13G40010.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G40010.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G069976_T01 (Zea mays), 3'ss of exon 8
gttggcagaaattgttttcagtaattattgttttatattttataatagaaatac----gaactcttga--atatggtcctatcttcagAAATGGGATGATCACCCTGCAATAATGGCTGTTGGTGTGGTTGATGGAACTTCAGAAGCCATCTTCCAGACTCTTATGTCGCTTGGTCCTTCAAGATCAG
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----------gtatatcttactcaccaacgtgttgtgcatgcacatggatttattgttaaattcataataattaggttgtttcctcagTATTGGGATGATCATCCGGCTATAATGGCAGTTGGTGTGGTTGATGCGAATTCCGAGGCTGTCTTTCAGACTCTAATGTCCCTTGGCCAATCAAGATCTG
upper sequence: GLYMA13G40010.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G28320.1 (Arabidopsis thaliana), 3'ss of exon 7
gttggcagaaattgttttcagtaattattg--------ttttatattttataatagaaat-acgaactcttgaatatggtcc-tatcttcagAAATGGGATGATCACCCTGCAATAATGGCTGTTGGTGTGGTTGATGGAACTTCAGAAGCCATCTTCCAGACTCTTATGTCGCTTGGTCCTTCAAGATCAG-
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gtcggtatttttttcactcttaatctgttgaaaaggtattttgggtttattgaagggaatcatgttttgatgattttgttgcatgacttcacag-
upper sequence: GLYMA13G40010.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0004g02720.t01 (Vitis vinifera), 3'ss of exon 7
gttggcagaaattgttttcagtaattattgttttatattttataatagaaatacgaactcttgaatatggtcctatcttcagAAATGGGATGATCACCCTGCAATAATGGCTGTTGGTGTGGTTGATGGAACTTCAGAAGCCATCTTCCAGACTCTTATGTCGCTTGGTCCTTCAAGATCAG-
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gttggtag------ctttc--taattgactgcctgt-tgttaaaatatgaacatca--cattgaacatg-ctttatcttcaacagTGGGATGATCATCCTGCAATAATGGCTGTGGGTGTGGTTGATGGGACTTCAGAGGCCATTTTTCAGACACTTATGTCTCTTGGTCCCTCAAGATCAGAMapped 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|22540949|gb|BU090792.1|BU090792EST: GTTTACGACTATTCAAGGAAGCAAAAGACAGGGATTCTAGTGGGAAG AAATGGGATGATCACCCTGCAATAATGGCTGTTGGTGTGGTTGATGGAACT
genomic: GTTTACGACTATTCAAGGAAGCAAAAGACAGGGATTCTAGTGGGAAGgttggcagaa ... ctatcttcagAAATGGGATGATCACCCTGCAATAATGGCTGTTGGTGTGGTTGATGGAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttttatattttataatagaaatacgaactcttgaatatggtcctatcttcagAAATGGGATGATCACCCTGCAATAATGGCTGTTGGTGTGGTTGATGGAACTTCAGAAGCCATCTTCCAGACTCTTATGTCGCTTGGTCCTTCAAGATCAG
tcctatcttc CT-rich tract
ttatattttataatag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggcagaaattgttttcagtaattattgttttatattttataatagaaatacgaactcttgaatatggtcctatcttcagAAATGGGATGATCACCCTGCAATAATGGCTGTTGGTGTGGTTGATGGAACTTCAGAAGCCATCTTCCAGACTCTTATGTCGCTTGGTCCTTCAAGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA