Sequence
atgc intronic sequence ATGC exonic sequence...ttaaacctgtttttatttcagtcaaaacatgtggattcagttttctggtgcattttattgctttcttttcactcatatttgatccctctaaactgttcagATTAAAAGCTTAAGGTTGCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCTTTTGTAGAGTATGTTACTCAGCAGGAGGCAAAAAATGCCCGCGAGGCAC
Basic information
species | Glycine max |
transcript | GLYMA14G24510.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G24510.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G031529_T01 (Zea mays), 3'ss of exon 12
--ttaaacctgtttttatttcagtcaaaacatgtggattcagttttctggtgcattttattgctttcttttcactcatatttgatccctctaaactgttcagATTAAAAGCTTAAGGTTGCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCTTTTGTAGAGTATGTTACTCAGCAGGAGGCAAAAAATGCCCGCGAGGCAC
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aaagaacggagggattacattagtttcaagttgataagtaattttactctttcccccca--ggaatcttatgatttgaattcattaaaattgaaatttgtagATCAAAAGCCTCAGGTTGCCTATGAAGTTTGGTAGCCACAGAGGTTTTGCGTTTGTGGAATACGTCACAAAACAAGAGGCCCAGAACGCTCTACAAGCCC
upper sequence: GLYMA14G24510.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv01s0011g01060.t01 (Vitis vinifera), 3'ss of exon 13
ttaaacctgtttttatttcag-tcaaaacatgtggattcagttttctggtgcattttattgctttcttttcactcatatttgatccctctaaactgttcagATTAAAAGCTTAAGGTTGCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCTTTTGTAGAGTATGTTACTCAGCAGGAGGCAAAAAATGCCCGCGAGGCAC
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ggtgattcatctttatcacaaatttatacaattgatctttcttgctttagggtccagactctgcttctctgattaactctcaaattcttgttatt-tgcagATCAAGAGCTTAAGACTTCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCATTTGTTGAATTTGTCACAAAGCAAGAGGCACAGAATGCTCTGCAAGCTCMapped 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|31465570|gb|CD407598.1|CD407598EST: GAGGCAACAGAGAAGGACCTGAGACGATTGTTTAGCCCATTTGGCCAG ATTAAAAGCTTAAGGTTGCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCT
genomic: GAGGCAACAGAGAAGGACCTGAGACGATTGTTTAGCCCATTTGGCCAGgtgattaatt ... aactgttcagATTAAAAGCTTAAGGTTGCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtgcattttattgctttcttttcactcatatttgatccctctaaactgttcagATTAAAAGCTTAAGGTTGCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCTTTTGTAGAGTATGTTACTCAGCAGGAGGCAAAAAATGCCCGCGAGGCAC
ctctaaa putative branch site (score: 3)
attttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaaacctgtttttatttcagtcaaaacatgtggattcagttttctggtgcattttattgctttcttttcactcatatttgatccctctaaactgttcagATTAAAAGCTTAAGGTTGCCAATGAAGTTTGGAAGCCATAGAGGCTTTGCTTTTGTAGAGTATGTTACTCAGCAGGAGGCAAAAAATGCCCGCGAGGCAC
- - -cctgttt
- - - - - - - - - - - - - acatgtg
- - - - - - - - - - - - - - - - - - - - - - ctggtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccctct