Sequence
atgc intronic sequence ATGC exonic sequence...gtctgctgagaaatgacatatcttggtttttactgtgtctttcatattttaatcataaggaaatatatttttataattccaagttttattggtgtcttagGTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCGTGGGGAAGTTCAGTGTGATATGGAACTTCCAACAAGTCAAGGATGGTTCTCATGAGT
Basic information
species | Glycine max |
transcript | GLYMA06G04290.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G04290.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G131638_T01 (Zea mays), 3'ss of exon 3
gtctgct-gagaaatgacatatcttggtttttactgtgtctttcatattttaatcataaggaaatatatttttataattccaagttttat----tggtgtcttagGTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCGTGGGGAAGTTCAGTGTGATATGGAACTTCCAACAAGTCAAGGATGGTTCTCATGAGT
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----gctagaaatatcccaaactctattctctgat-taacaaaaacccattacccaccagcatgagcattcgttgacatttgatcctcatccgatgattgcgcagGTGACAGAGAACGGGAAGCAGGAGCGGCATCTAGTGGCCACGGTGGGGAAGTACAGCGTGGTGTGGAACTTCTTGCAGGTGAAGAACAGCCACCACGAGT
upper sequence: GLYMA06G04290.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G33400.1 (Arabidopsis thaliana), 3'ss of exon 1
gtctgctgagaaatgacatatcttggtttttactgtgtctttcatattttaatcataaggaaatatatttttataattccaagttt----tattggtgtcttagGTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCGTGGGGAAGTTCAGTGTGATATGGAACTTCCAACAAGTCAAGGATGGTTCTCATGAGT
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-actactgttgaatcattcatcaattgaaataactttttactaatagttgattcctgact--ctttttgtctatcttttcttgttgaaaatgtcgatatat-agGTCACGGAGGATGGGAAACAGGAGCGTCATGTGGTAGCTACTGTTGGCAAGTTCAGTGTGATATGGAACTTTCAGCAGGTGAAGAATGGATCTCATGAAT
upper sequence: GLYMA06G04290.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0001g10540.t01 (Vitis vinifera), 3'ss of exon 1
-gtctgctgagaaatg-acatatcttggtttttactgtgtctttcatattttaatcataaggaaatatatttttataattccaagttttattggtgtcttagGTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCGTGGGGAAGTTCAGTGTGATATGGAACTTCCAACAAGTCAAGGATGGTTCTCATGAGT
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tgtattctttcttatacatgcagcatg-tttctcttatatcctt-atgattggttctttggcttttaactgtcttgtggtccaacattttgaaattccatagGTCACAGAGAATGGGAAGCAGGAGCGCCACCTGGTTGCCACAGTAGGAAAGTTTAGTGTGATATGGAATTTTCAACAGGTGAAGAATGGCTCCCATGAGTMapped 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|15813882|gb|BI786157.1|BI786157EST: CACATTTGGCTGGAGCGAATAATAAGTTCCGCAATGCTCAGTTTTCGTGG GTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCGGTGGG
genomic: CACATTTGGCTGGAGCGAATAATAAGTTCCGCAATGCTCAGTTTTCGTGGgtaagtgtga ... ggtgtcttagGTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCG-TGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttaatcataaggaaatatatttttataattccaagttttattggtgtcttagGTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCGTGGGGAAGTTCAGTGTGATATGGAACTTCCAACAAGTCAAGGATGGTTCTCATGAGT
ttttaat putative branch site (score: 3)
ataaggaaatatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgctgagaaatgacatatcttggtttttactgtgtctttcatattttaatcataaggaaatatatttttataattccaagttttattggtgtcttagGTGACAGAGAATGGGAAACAGGAGCGACATATAGTAGCCACCGTGGGGAAGTTCAGTGTGATATGGAACTTCCAACAAGTCAAGGATGGTTCTCATGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- ctgctga
- - - - - - - - - - - - - - - tactgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttccaag