Sequence
atgc intronic sequence ATGC exonic sequence...ttaaaatatttaaattggatcatattattttgtactttctaaaataaaatattatttaatataaatatattttttctcattttcattcaaatgtgtacagGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTG
Basic information
species | Glycine max |
transcript | GLYMA02G43540.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G43540.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv12s0059g01420.t01 (Vitis vinifera), 3'ss of exon 11
ttaaaatatttaaattggatcatattattttgtactttctaaaataaaatatt--atttaatata---aatatattttttctcattttcattcaaatgtgtacagGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTG
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---ctttttcccaattcagtaacttcattttgagacttctctattccaacttttgaattattattttcaagaaattaaaactcattccaa--ggggtgttcttagGTTCGCACCTTCAGAGGACACACTAATGAGAAGAACTTCGTGGGCCTCTCTGTAAACAGTGAATATATTTCTTGTGGCAGTGAAACAAACGACGTCTTCG
upper sequence: GLYMA02G43540.2 (Glycine max), 3'ss of exon 11
lower sequence: PP1S86_153V6.1 (Physcomitrella patens), 3'ss of exon 11
ttaaaatatttaaattggatcatattattttgtactttctaaaataaaatattattta-atataaatatattttttctcattttcattcaaatgtgtacagGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTG
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gtaccagctagcagtttgagtttccgttttttgggtcttgactgtttatgatgacttgtgcataaagttattcaa-ctgacatcaggtgttctgaacgcagATAAGGACACTAAAAGGTCACACCAATGAAAAGAATTTTGTTGGACTTACTGTCAACAGTGAGTATATCGCCTGTGGCAGTGAAACAAACGAGGTGTTTGMapped 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|10845545|gb|BF068639.1|BF068639EST: CATCAACAGATAGTACACTGCGATTATGGGATGTGAAGGAAAACTTACCA GTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACA
genomic: CATCAACAGATAGTACACTGCGATTATGGGATGTGAAGGAAAACTTACCAgtaagtaata ... atgtgtacagGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatattatttaatataaatatattttttctcattttcattcaaatgtgtacagGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTG
atttaat putative branch site (score: 4)
attatttaatataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaaaatatttaaattggatcatattattttgtactttctaaaataaaatattatttaatataaatatattttttctcattttcattcaaatgtgtacagGTTCGTACTTTCAAAGGCCATGCAAATGAGAAAAACTTTGTTGGTCTTACAGTAAGCAGTGAATATATTGCGTGTGGCAGTGAAACAAATGAAGTCTTTG
- - - - - - - - - - - - - - - - - - - - aaaataa