Sequence
atgc intronic sequence ATGC exonic sequenceGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAAgtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacag
Basic information
species | Glycine max |
transcript | GLYMA09G39750.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39750.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G120329_T01 (Zea mays), 5'ss of exon 3
GCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAAgtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacag
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GCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAGgta--------gctttaagataccatattatagtgcatattgg-aatgact-tatattgtgtatcaagaaacata------atagatacgcagctctttctgtagatagaagattg-----------
upper sequence: GLYMA09G39750.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G035098_T01 (Zea mays), 5'ss of exon 5
GCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAAgta----tgtgatacact--tgaagcttttgtttacctgtttgtttttatgatg----atgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacag
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GCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAGgtagctttaagatacaatattatagtgcatattggaatgactttttatattgtgtatcaagaaacaaaatagatacacaggtctttctgtagatagaaga-------------------------------------
upper sequence: GLYMA09G39750.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 5'ss of exon 3
GCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAAgtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgac--atggtttggatca--tcgactatatgtgatatcaagacac-cacatttccgtttcttactttgttgtt-ttctaacag-------------------------------
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GCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAAgtacgtgg-atccttacatccttcaatttattatctattatgatagctatagcctacagcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttctgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacag
upper sequence: GLYMA09G39750.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ12123 (Selaginella moellendorffii), 5'ss of exon 4
GCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAAgtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacag
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-----------TCGAACTCGAATGGTGCTTTTCAAAATGTTAAATCGGGGAGTCTTTCATGATATCAATGGCTGCATTTCCACCGGAAAAGAGGCA--------------AGCTTTTGC--AACTGTgttttcttaagtttcaatcttctgctgtttcatttacag------------------------------------------------------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|208165133|gb|GD965809.1|GD965809EST: ACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA GCAAATGTTTATCATGCAACTAAATCTGA
genomic: ACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAAgtatgtgata ... tttctaacagGCAAATGTTTATCATGCAACTAAATCTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAAgtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA