Sequence
atgc intronic sequence ATGC exonic sequencegtgagcaattttttttataatttataaacaagggttatacacttctatttatttattattttttaaaaattctggtatttggtaaacatagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
Basic information
species | Glycine max |
transcript | GLYMA07G38050.2 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 20
lower sequence: AT5G18620.2 (Arabidopsis thaliana), 3'ss of exon 20
gtgagcaattttttttataatttataaacaagggttatacacttctatttatttattattttttaaaaattctggtatttggtaaacat-agGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
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----gcaagccaaaccattcgaccttactgtgggttg-acatttgtttttgatggtt--tttttataatttaatggagttgatattttttagGGTTTCTCAACATGGAGCAGAAGAGACTTCAATGCCTTCATTAGGGCTTGTGAGAAGTATGGCCGGAACGACATAAAGAGTATTGCCTCTGAGATGGAAG
upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 3'ss of exon 20
gtgagcaattttttttataatttataaacaagggttatacacttctatttatttattattttttaa--aaattctggtatttggtaaacat-agGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
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gcaagtgaatatgtttgatgtt-----agagtggtcttagacatttg---atttggtaggctttaattaattttttgtaattgtcaatctccagGGTTTCTCAACATGGAGCAGAAGAGATTTTAATACTTTCCTCAGGGCTTGTGAGAAGTATGGCCGCAACGACATAAAAAGCATTGCCTCTGAGATGGAAG
upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 20
gtgagcaattttttttataatttataaacaagg-gttatacacttctatttattt-attattttttaaaaattctggtatttggtaaac-atagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
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-------------------gtgagtagaccatctactgtagggtaggatctgttttggtttcttttctaatctttgacttttggtgaattgtagGGATTTTCATCATGGAGTAGAAGAGATTTCAATACTTTCATTAGGGCTTGTGAGAAGTATGGCCGGAATGATGTAAAAAGTATTGCTTCTGAAATGGAAGMapped 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|208152321|gb|GD946150.1|GD946150EST: ATCCATTGACTGCCG-GGAGTTAGAAGAAAAGGAGCAGTTGCTAGAGGAG GGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGT
genomic: ATCCATTGACTGCCGAAGAGTTAGAAGAAAAGGAGCAGTTGCTAGAGGAGgtgagcaatt ... gtaaacatagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacacttctatttatttattattttttaaaaattctggtatttggtaaacatagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
ttctatttatttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcaattttttttataatttataaacaagggttatacacttctatttatttattattttttaaaaattctggtatttggtaaacatagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG