Sequence
atgc intronic sequence ATGC exonic sequence...tacgtggcggtttctttttcctctttttatattaatgactctttgctaccattcatatctagtagcattttttgtgcttgataattaataccatttacagGTTGCCAAAGAAAATGCCGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATACATAAACATTCAAA
Basic information
species | Glycine max |
transcript | GLYMA19G31770.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G31770.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G305159_T02 (Zea mays), 3'ss of exon 5
--tacgtggcggtttctttttcctctttttatattaatgactctttgctaccattcatatctagtagcattt-tttgtgcttgataattaataccatttacagGTTGCCAAAGAAAATGCCGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATACATAAACATTCAAA
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cttagctgagattgtatttgttattccattcaacta--ggcttttctttatgatacaaat-tgttagtgtagatttatgatgcaaatgtttggctggatgcagGTCGCAAAAGAAAATGCCGATGTTATAATAATGGATGATAATTTCAGTACCATTGTAAATGTTGCTAGATGGGGTCGTGCGGTTTACTTGAACATTCAGA
upper sequence: GLYMA19G31770.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G41560.1 (Arabidopsis thaliana), 3'ss of exon 4
tacgtggcggtttctttttcctctttttatattaatgactctttgctaccattcatatctagtagc-attttttgtgcttgataattaatacc-atttacagGTTGCCAAAGAAAATGCCGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATACATAAACATTCAAA
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------gtaagctatagttattctctgt-tattggt-----ttggttaataaaaaaatctcgagattaacattttcgtttggtgctaattcccgatatgcagGTTGCGAAAGAGAATGCTGATGTGATCATAATGGACGATAACTTCAAAACAATAGTAAATGTGGCTAGATGGGGACGTGCTGTATATATAAACATTCAGA
upper sequence: GLYMA19G31770.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g08960.t01 (Vitis vinifera), 3'ss of exon 4
-----tacgtggcggtttctttttcctctttttatattaatgactctttgctaccattcatatctagtagcattttttgtgcttgataattaataccatttacagGTTGCCAAAGAAAATGCCGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATACATAAACATTCAAA
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acttgtaggatgcaacctgtcctgctacttattccagtgctattcctgcttttgcattattcttgaacttacccatatatacatggt-----atgttatctatagGTTGCCAAAGAAAATGCTGATGTCATCATAATGGACGATAATTTTGCCACTATAGTAAATGTAGCCAAATGGGGCCGTGCAGTATATATAAACATTCAAAMapped 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|298178942|gb|HO024677.1|HO024677EST: CACTGTGCGAGGCAGACATTGGACTTGCAATGGGCATAGCAGGAACTGAG GTTGCCAAAGAAAATGCCGATGTCATTATAATGGATGATAACTTCACGACT
genomic: CACTGTGCGAGGCAGACATTGGACTTGCAATGGGCATAGCAGGAACTGAGgtttgtatct ... ccatttacagGTTGCCAAAGAAAATGCCGATGTCATTATAATGGATGATAACTTCACGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaccattcatatctagtagcattttttgtgcttgataattaataccatttacagGTTGCCAAAGAAAATGCCGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATACATAAACATTCAAA
aattaat putative branch site (score: 3)
ataattaataccattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacgtggcggtttctttttcctctttttatattaatgactctttgctaccattcatatctagtagcattttttgtgcttgataattaataccatttacagGTTGCCAAAGAAAATGCCGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATACATAAACATTCAAA
- -gtggcgg
- - - - - - - - - - - - - - - - - - - - - -tgctacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttga