Sequence
atgc intronic sequence ATGC exonic sequence...agccccaccacaatattttgtatacaattaattaatttcagtgctttatttaattttagtataattactttattgttttggttctttattttttttgtagACAGATAAAGCATCATTGCTAGCAGAAGTGATCCAGCATGTGAAGGAGCTGAAGCGTCAAACCTCTCTGATAGCAGAAACGAGTCCGGTTCCAACAGAAG
Basic information
species | Glycine max |
transcript | GLYMA20G32660.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32660.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g02940.t01 (Vitis vinifera), 3'ss of exon 2
agccccaccacaatattttgtatacaattaattaatttcagtgctttatttaattttagtataatt---actttattgttttggttctttattttttttgtagACAGATAAAGCATCATTGCTAGCAGAAGTGATCCAGCATGTGAAGGAGCTGAAGCGTCAAACCTCTCTGATAGCAGAAACGAGTCCGGTTCCAACAGAAG
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acatcctggactgcaagcgatgtttaattagcagagg--aatcattacttaaaacttgctattaatcaaattttgatgtgttg-ttctcgtttatggatgtagACGGACAAAGCTTCACTGCTAGCAGAAGTGATACAGCATGTTAAAGAACTTAAACGACAGACATCTCTGATTGCAGAGTCTAGTCCGGTACCAACTGAAAMapped 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|8282958|gb|BE020519.1|BE020519EST: TCAATAACCATCTTGCTAAGCTGCGCAGCTTGTTGCCTAGCACAACCAAA ACAGATAAAGCATCATTGCTAGCAGAAGTGATCCAGCATGTGAAGGAGCTG
genomic: TCAATAACCATCTTGCTAAGCTGCGCAGCTTGTTGCCTAGCACAACCAAAgtaagtctaa ... ttttttgtagACAGATAAAGCATCATTGCTAGCAGAAGTGATCCAGCATGTGAAGGAGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttaattttagtataattactttattgttttggttctttattttttttgtagACAGATAAAGCATCATTGCTAGCAGAAGTGATCCAGCATGTGAAGGAGCTGAAGCGTCAAACCTCTCTGATAGCAGAAACGAGTCCGGTTCCAACAGAAG
atttaat putative branch site (score: 4)
ttttggttctttattt putative PPT
tataattactttattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agccccaccacaatattttgtatacaattaattaatttcagtgctttatttaattttagtataattactttattgttttggttctttattttttttgtagACAGATAAAGCATCATTGCTAGCAGAAGTGATCCAGCATGTGAAGGAGCTGAAGCGTCAAACCTCTCTGATAGCAGAAACGAGTCCGGTTCCAACAGAAG
- ccccacc
- - - - - - - - - - - - - - - - - - -tcagtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttttg