Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgctgcgatttttttttttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA
Basic information
species | Glycine max |
transcript | GLYMA06G13210.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G13210.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G53120.1 (Arabidopsis thaliana), 3'ss of exon 1
----------gtaagtgctgcgatttttttt--tttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA
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ctgaaatctattcaacggtgttagttttttaagtctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttg-ctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA
upper sequence: GLYMA06G13210.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G53120.5 (Arabidopsis thaliana), 3'ss of exon 1
gtaagtgctgcgatttttttttttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA
||| | | ||||| | ||||| |||| || | | | | ||| | ||| || | || | | ||| | |||||||||||| ||||||| | ||||||||||| | |||||||| | || |||| |||||||| ||||| ||| |||||||||||||||||||||||
----gtgtta-gttttttaagtctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttg-ctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA
upper sequence: GLYMA06G13210.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G53120.2 (Arabidopsis thaliana), 3'ss of exon 1
---gtaagtgctgcgatttttttt--tttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA-------
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ctattcaacggtgttagttttttaagtctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttg-ctgtttttgtttgtgtagtatacagAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAATGGAAAT
upper sequence: GLYMA06G13210.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtgctgcgatttttttttttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA
| | | ||||| | ||||| |||| || | | | | ||| | ||| || | || | | ||| | |||||||||||| ||||||| | ||||||||||| | |||||||| | || |||| |||||||| ||||| ||| |||||||||||||||||||||||
------gtta-gttttttaagtctttttgatttttgtgccttcaagttgtgtgtggattctcatggtttg-ctgtttttgtttgtgtagTATACAGAGGCTGGAGCTGGGGAAGAAAAGGATTGTCTATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAA
upper sequence: GLYMA06G13210.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 1
---------gtaag-tgctgcgatttttttttttttttaat--ttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA-----
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catattttgatgggattttgaagtgaaacattcaatatgatggctactgccttttctactatgaga-aactccattcttcttataact-atgtt----tgatttctAGAGACTGGAGCCGGAGAAGAAAAAGATAATCTATGGAGGGCGGCGCAGGAAAAGGTTTGGAATGCCCGAAGATTATGGATGGGAAGGCGAGTAACGGGAMapped 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|193491832|gb|FK456468.1|FK456468EST: TTATAAATTGAGATTCTTCTTAATTTGCCATTGTGCTTCCACTTTACTCT TATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCG
genomic: TTATAAATTGAGATTCTTCTTAATTTGCCATTGTGCTTCCACTTTACTCTgtaagtgctg ... gtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA
ataattttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgctgcgatttttttttttttttaatttatgaacttaaagatggtgggataattttcttttcgtgacaactcatgtgcttatagTATACAGAGACTGGAGCCTGAGAAGAAAAGGAGAATTTATGGAGGACGGCGCAGGAAGAGGTTTGGAATGCCCGAAGACTATGGATGGGAAGGCGAGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA