Sequence
atgc intronic sequence ATGC exonic sequence...ttgaatccctatgacatgggttgggagacaggactttatgttaggtctatcttatgaagaaagtcatgtgaatatttaccatctttaattatgtttacagAACATCCCTGGCTGCAAAATGCAAAGAAAGCTCCAAATGTTCCATTAGGAGATATTGTGAGGTCAAGGCTTAAGCAGTTTTCTGTGATGAATAGATTCAA
Basic information
species | Glycine max |
transcript | GLYMA04G34440.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G34440.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G18890.1 (Arabidopsis thaliana), 3'ss of exon 3
ttgaatccctatgacatgggttgggagacaggactttatgttaggtctatcttatgaagaaagtcatgtgaatatttaccatctttaattatgtttacagAACATCCCTGGCTGCAAAATGCAAAGAAAGCTCCAAATGTTCCATTAGGAGATATTGTGAGGTCAAGGCTTAAGCAGTTTTCTGTGATGAATAGATTCAA
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----------gtgaagttc-ttgtgtttctgttttctttaatggtcgtagttaccttaatccactctattactaatgattttctttttctcacctttcagCTCACCCATGGATACAGAATGCAAAGAAAGCTCCCAATGTTCCTTTAGGAGATATAGTCAGATCTAGGTTGAAGCAGTTCTCTATGATGAACAGATTCAA
upper sequence: GLYMA04G34440.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G74740.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------ttgaatc-cctatgacatggg------ttgggagacaggactttatgttaggtctatcttatgaagaaagtcatgtgaa-tatttaccatctttaatta--tgtttacagAACATCCCTGGCTGCAAAATGCAAAGAAAGCTCCAAATGTTCCATTAGGAGATATTGTGAGGTCAAGGCTTAAGCAGTTTTCTGTGATGAATAGATTCAA
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gtaataatgctgttcttgtgtcacttgtgaattttgatcttctttgctacttgtttcttgtgttggatttgagatggagaaaatggcatttaaagtgaaaacggtttctgtttccttctttgcagATCACCCTTGGATACAGAATGCAAAGAAAGCTCCAAATGTTCCTTTAGGGGATATTGTTAGGTCAAGGTTGAAGCAATTCTCCATGATGAATAGATTGAA
upper sequence: GLYMA04G34440.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g05520.t01 (Vitis vinifera), 3'ss of exon 3
ttgaatccctatgacatgggttgggagacaggactttatgttaggtctatcttatgaagaaagtcatgtgaatatttaccat-ctttaattatgttta-cagAACATCCCTGGCTGCAAAATGCAAAGAAAGCTCCAAATGTTCCATTAGGAGATATTGTGAGGTCAAGGCTTAAGCAGTTTTCTGTGATGAATAGATTCAA
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-ttatcacctggaaactatttctgtaatcatcctgcaacatggctggtttcttgttaattt-gttatactgatttttgcttttcttttctcatctttggcagAACATTCCTGGTTACAGAATGCAAAGAAAGCTCCAAATGTTCCATTAGGAGATATTGTGAGAACAAGGCTCAAGCAGTTCTCTTGCATGAACAGATTCAAMapped 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|193366857|gb|FK331543.1|FK331543EST: AATGTTGGAGCCGGATCCTAAAAAGCGCTTGACAGCGGAACAGGTGCTTG AACATCCCTGGCTGCAAAATGCAAAGAAA
genomic: AATGTTGGAGCCGGATCCTAAAAAGCGCTTGACAGCGGAACAGGTGCTTGgtaagtcatt ... atgtttacagAACATCCCTGGCTGCAAAATGCAAAGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctatcttatgaagaaagtcatgtgaatatttaccatctttaattatgtttacagAACATCCCTGGCTGCAAAATGCAAAGAAAGCTCCAAATGTTCCATTAGGAGATATTGTGAGGTCAAGGCTTAAGCAGTTTTCTGTGATGAATAGATTCAA
ctttaat putative branch site (score: 4)
aatatttaccatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgaatccctatgacatgggttgggagacaggactttatgttaggtctatcttatgaagaaagtcatgtgaatatttaccatctttaattatgtttacagAACATCCCTGGCTGCAAAATGCAAAGAAAGCTCCAAATGTTCCATTAGGAGATATTGTGAGGTCAAGGCTTAAGCAGTTTTCTGTGATGAATAGATTCAA
- - - -cctatga
- - - - - - - - -gggttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgtg