Sequence
atgc intronic sequence ATGC exonic sequence...ttacaagaagtaaaaatatatttagcccaaattatttttttttttcatattaattatgcaatttatcatctttaatgtcttatctcttatggcattgcagATTCATCTAGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCGCCATGTGTCCACGAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
Basic information
species | Glycine max |
transcript | GLYMA13G26700.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G26700.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv13s0067g03000.t01 (Vitis vinifera), 3'ss of exon 16
ttacaagaagtaaaaatatatttagcccaaattatttttttttttcatat-taattatgcaatttatcatctttaatgtcttatctcttatggcattgc-agATTCATCTAGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCGCCATGTGTCCACGAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
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-catgctacctgcctgcagctttccctgttcttgatttgttccttggcatatcattgttatttccagtcaccttgttatattgt-tatggcggtgttcccagGTGCATCTGGACCACAAGCACATGGGTTTGGGTGGTGATGATAGCTGGTCTCCCTGTGTCCATGAGAAATACCTGATTCCAGCGGTGCCATACTCATTCT
upper sequence: GLYMA13G26700.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ13378 (Selaginella moellendorffii), 3'ss of exon 16
ttacaagaagtaaaaatatatttagcccaaattatttttttttttcatattaattatgcaatttatcatctttaatgtcttatctcttatggcattgcagATTCATCTAGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCGCCATGTGTCCACGAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT-
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-----------------gtatccc-ccagagctatcttttcaccttttgtttctta--ctgtttgt----tttaaacgattatcatac------ttgcagGTGCACCTTGATCACAAGCACATGGGTTTAGGTGGCGATGATAGTTGGAGTCCCTGCGTCCACGATGAGTACCTCGT-CTTACCACGAAATTACGAGTTTG
upper sequence: GLYMA13G26700.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ11904 (Selaginella moellendorffii), 3'ss of exon 16
ttacaagaagtaaaaatatatttagcccaaattatttttttttttcatattaattatgcaatttatcatctttaatgtcttatctcttatggcattgcagATTCATCTAGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCGCCATGTGTCCACGAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT-
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------------------------------------gtatcccccagagctttcttttcaccttttgtttcttactgtttgttttaatac----ttgcagGTGCACCTTGATCACAAGCACATGGGTTTAGGTGGCGATGATAGTTGGAGTCCCTGCGTCCACGATGAGTACCTCGT-CTTACCACGAAATTACGAGTTTGMapped 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|254342783|gb|GR858945.1|GR858945EST: TTGACCGTGCGACACACAATGAAGAGCTCATTGAAGGAGATAGCATTGAG ATTCATCTAGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCG
genomic: TTGACCGTGCGACACACAATGAAGAGCTCATTGAAGGAGATAGCATTGAGgtatttataa ... ggcattgcagATTCATCTAGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catattaattatgcaatttatcatctttaatgtcttatctcttatggcattgcagATTCATCTAGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCGCCATGTGTCCACGAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
aatttatcatctttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttacaagaagtaaaaatatatttagcccaaattatttttttttttcatattaattatgcaatttatcatctttaatgtcttatctcttatggcattgcagATTCATCTAGATCACAAGCACATGGGATTGGGTGGAGATGATAGTTGGTCGCCATGTGTCCACGAACAGTATTTGATTCCTCCTGTGCCATACTCATTCT
- - - - - -aaaaata
- - - - - - - - - - - - -cccaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - tatgcaa