Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcatataaatataaatatcattaaacaatgtatctactacctagcattcatgtgagcaatgctttattcttatctattattgttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTACACTACTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCTTATTTCCT
Basic information
species | Glycine max |
transcript | GLYMA20G32210.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32210.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os06g51460.1 (Oryza sativa), 3'ss of exon 11
-------------------------gtaagtcatataaatataaatatcatt-------aaacaatgt--atctactacctagcattcatgtgagcaatgctttattcttatctattat----------tgttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTACACTACTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCTTATTTCCT
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gtaagtttctcagcccatcctggaaaggagtcttttttatccatgaattattttcagagaaataatgtttatataatacgtaatgagaaaataagtaagtagtaaaaataaggtaataagcgtgggatatattaattgcagCTCTGCTGTGCAAGATTGGAGCGCTGAGATCATTCTCTCTGGAGAAGATACACTACTGGAGGGAGAGAGCATCTGGAATGAGCTCGTTGGCGTACTTCAT
upper sequence: GLYMA20G32210.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G166889_T01 (Zea mays), 3'ss of exon 11
gtaagtcatataaatataaatatcattaaacaatgtatctactacctagcattcatg--tgagcaatgcttta--ttcttatctattattgttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTACACTACTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCTTATTTCCT
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gtaagttttatacgcttcaatctgat-gaacaatgatcagaacttcgttcattagcgaatgtataatagaataagttgctgttgttggccgccgcgcgcagCTCTGCTGTGCAAGATTGGGGCCTTGAGATCGTTCTCGCTGGAGAAGATACACTACTGGAGGGAGAGAGCGTCCGGCATGAGCTCGCTGGCATACTTCCT
upper sequence: GLYMA20G32210.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 11
---gtaagtcatataaatataaatatcattaaacaatgtatctactacctagcattcatgtgagcaatgctttattcttatctattattgttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTACACTACTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCTTATTTCCT
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ttgctgatacatccaacattaagtagattttatttatacaaaaattttcttccttgcatgttctcgtctttatttattttgttcttgttatggatttcagCTCTCCTATGTAAAATTGCGGCTTTGAGATCATTTTCTCTGGAGAAGTTACAGTACTGGAGAGAGAGTGCATCTGGCATTAGCAGTCTGGCTTATTTTCTMapped 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|23732068|gb|BU764187.1|BU764187EST: TGACCAAACATTTGGTGCAGCTGGGTACACCTATACGGTGATTGCTGTAT CTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTAC
genomic: TGACCAAACATTTGGTGCAGCTGGGTACACCTATACGGTGATTGCTGTATgtaagtcata ... ttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacctagcattcatgtgagcaatgctttattcttatctattattgttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTACACTACTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCTTATTTCCT
tgttaat putative branch site (score: 3)
tttattcttatctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcatataaatataaatatcattaaacaatgtatctactacctagcattcatgtgagcaatgctttattcttatctattattgttaatttcagCTCTTCTGTGCAAAATAGCGGCCTTGAGATCATTTTCTCTGGATAAATTACACTACTGGAGGGAGAGTGATTCTGGCATGAGCAGCTTGGCTTATTTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT