Sequence
atgc intronic sequence ATGC exonic sequenceCTGCCCCTAGAAAGTTGTTGGCATCAGATTCTCGACTACGCCCAGATAGATATGCACTCGAGATGGGCGATCTGTCAAAATCTGGGACAGAAAAGAGCAGgttactcaccctttcttttgttcctcctatccccttgtgcccaaaaatttagcagagcattttagaagcactaacacgaatgtcaaattgagtaacgtac...
Basic information
species | Glycine max |
transcript | GLYMA12G06690.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G06690.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g16690.1 (Oryza sativa), 5'ss of exon 9
CTGCCCCTAGAAAGTTGTTGGCATCAGATTCTCGACTACGCCCAGATAGATATGCACTCGAGATGGGCGATCTGTCAAAATCTGGGACAGAAAAGAGCAGgttactcaccctttcttttgttcctcctatccccttgtgcccaaaaatttagcagagcattttagaagcactaacacgaatgtcaaattgagt---aacgtac--
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CGGCGCCGAAGAAGCTATTGGCATCGGACTCCCGATTGAGGCCTGATAGATATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctcattttgtcctaaacctgcgttgttttaggtgtttaatttgaggcatgtggcaaccatccaattatcttgacatttcatttcgtggaaactttcag
upper sequence: GLYMA12G06690.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G114126_T01 (Zea mays), 5'ss of exon 9
CTGCCCCTAGAAAGTTGTTGGCATCAGATTCTCGACTACGCCCAGATAGATATGCACTCGAGATGGGCGATCTGTCAAAATCTGGGACAGAAAAGAGCAGgttactcaccctttcttttgttcctcctatccccttgtgcccaaaaatttagcagagcattttagaagcactaacacgaatgtcaaattgagtaacgtac----------------------------------------------
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CGGCACCTAAGAAGCTGTTGGCATCTGATTCCCGGCTGAGGCCCGATAGATATGCCCTCGAGAAGGGCGACATGTCCAAGTCTGGCTCAGAAAAGAGCAGgtatctcctcccccgccccgcccccttctctcctctgcctttacgattgtattttaattccgaacatcttgttttgcctctgcctggctgcctgccttccttcctgacaccacccctggcccctgcgttcccgcaaaacttttcag
upper sequence: GLYMA12G06690.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv06s0004g04930.t01 (Vitis vinifera), 5'ss of exon 9
CTGCCCCTAGAAAGTTGTTGGCATCAGATTCTCGACTACGCCCAGATAGATATGCACTCGAGATGGGCGATCTGTCAAAATCTGGGACAGAAAAGAGCAGgttactcac---cctttcttttgttcct--cctatccccttgtgcccaaaaatttagcagagcattttagaagcactaacacgaatgtcaaattgagtaacgtac
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CAGCTCCTAGGAAGTTGTTGGCATCAGATTCTCGTTTGCGCCCTGATAGATATGCACTTGAAAAGGGAGATCTATCAAAAGCTGGTGCTGAAAAGAGCAGgtctctctcagacatacacatagtggcaagcttatgcatacatttacaataattaaaaaga---tattagttactagggctctaagacgaacctaatgaaact--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|6916157|gb|AW397687.1|AW397687EST: TATGCACTCGAGATGGGCGATCTGTCAAAATCTGGGACAGAAAAGAGCAG TTTGGAGGAAAGGCAGCGTGCTGAAAAGAGAAGCCGAGAGGAGAAAGGGCA
genomic: TATGCACTCGAGATGGGCGATCTGTCAAAATCTGGGACAGAAAAGAGCAGgttactcacc ... tttctttcagTTTGGAGGAAAGGCAGCGTGCTGAAAAGAGAAGCCGAGAGGAGAAAGGGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGCCCCTAGAAAGTTGTTGGCATCAGATTCTCGACTACGCCCAGATAGATATGCACTCGAGATGGGCGATCTGTCAAAATCTGGGACAGAAAAGAGCAGgttactcaccctttcttttgttcctcctatccccttgtgcccaaaaatttagcagagcattttagaagcactaacacgaatgtcaaattgagtaacgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcccctt