Sequence
atgc intronic sequence ATGC exonic sequence...atgaaacaaacacactatattcagaaagtaggaagttgttgaatagaaagaagacaaaaaagattgataggtaaataactatatgctcttctatatgtagGTCTACAAATTTAGACTCATGGAGTCCTGAGCAACTAAAAACGATGAGCTTTGGAGGAAACAATCGTGCACATGGTTTCTTTAAGCAACATGGTTGGACT
Basic information
species | Glycine max |
transcript | GLYMA01G12340.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 2
---------atgaaacaaacacactatattcagaaagtaggaagttgttgaatagaaagaagacaaaaaagattgataggtaaataactatatgctcttctatatgtagGTCTACAAATTTAGACTCATGGAGTCCTGAGCAACTAAAAACGATGAGCTTTGGAGGAAACAATCGTGCACATGGTTTCTTTAAGCAACATGGTTGGACT
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tattttttgggaaatttaacatagttcact--gacatttttactttatgcagttgcacatcgaatgactgaatcaatac-tgaaaaacag------ctacaatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTATGGAGGAAACAACCGTGCACAAGCTTTCTTTAAGCAGCATGGTTGGACA
upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G094390_T01 (Zea mays), 3'ss of exon 2
------atgaaacaaacacactatattcagaaagtaggaagttgttgaatagaaagaagacaaaaaagattgataggtaaataactatatgctcttctatatgtagGTCTACAAATTTAGACTCATGGAGTCCTGAGCAACTAAAAACGATGAGCTTTGGAGGAAACAATCGTGCACATGGTTTCTTTAAGCAACATGGTTGGACT
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atcctttggaaagtttaacatagttcactaacatttttactttatgcagttgcacactgaatgacttaatcaatactgaaaaaactg------ctacaatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAACTGAAAATGATGGTCTATGGCGGAAATAACCGTGCGCAAGCTTTCTTTAAGCAGCATGGTTGGACA
upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G46750.1 (Arabidopsis thaliana), 3'ss of exon 2
----atgaaacaaacacactatattcagaaagtaggaagttgttgaatagaaag--aagacaaaaaagattgataggtaaataactatatgctcttctatatgtagGTCTACAAATTTAGACTCATGGAGTCCTGAGCAACTAAAAACGATGAGCTTTGGAGGAAACAATCGTGCACATGGTTTCTTTAAGCAACATGGTTGGACT
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gattaggaagatgttgacttattttttcctgttgaccactctatttatagcatttcatgttgttgtagatctat---tataagatcatattgtttt---tgtgcagGTCAACGAACTTAGACTCGTGGAGTCCTGAGCAGCTAAGAACAATGATGTTTGGAGGGAACAATCGAGCTCAGGTGTTTTTTAAGCAACATGGATGGAAT
upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0012g01330.t01 (Vitis vinifera), 3'ss of exon 2
atgaaacaaacacactatattcagaaagtaggaagttgttgaatagaaagaagacaaaaaagattgataggtaaata-actatatgctcttctatatgtagGTCTACAAATTTAGACTCATGGAGTCCTGAGCAACTAAAAACGATGAGCTTTGGAGGAAACAATCGTGCACATGGTTTCTTTAAGCAACATGGTTGGACT
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atgtgtggagcatttccttttcatcctttctcctttttttttcaccctttttgatagttttgttttactaattgctgtgccaaaaattgatttgc-tccagGTCTACAAATTTAGACTCATGGAGTGCAGAGCAGTTAAAGATGATGAGCTTTGGGGGAAACAACCGTGCACAGGCTTTCTTTAAGCAGCATGGATGGTCTMapped 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|7146935|gb|AW508857.1|AW508857EST: GTGCACATCAGCTTCGTGAG
genomic: GTGCACATCAGCTTCGTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaagaagacaaaaaagattgataggtaaataactatatgctcttctatatgtagGTCTACAAATTTAGACTCATGGAGTCCTGAGCAACTAAAAACGATGAGCTTTGGAGGAAACAATCGTGCACATGGTTTCTTTAAGCAACATGGTTGGACT
aaataac putative branch site (score: 2)
tgctcttct putative PPT
taaataactatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaaacaaacacactatattcagaaagtaggaagttgttgaatagaaagaagacaaaaaagattgataggtaaataactatatgctcttctatatgtagGTCTACAAATTTAGACTCATGGAGTCCTGAGCAACTAAAAACGATGAGCTTTGGAGGAAACAATCGTGCACATGGTTTCTTTAAGCAACATGGTTGGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA