Sequence
atgc intronic sequence ATGC exonic sequence...ttgtgtagagtggtgttaacttttaacttttcatatttatctgattgtttccagtttctgttaaatttgaaaattgcttctttttttggtacttttacagAGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTTGCTTTTCACATGAAG
Basic information
species | Glycine max |
transcript | GLYMA06G44340.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G20580.1 (Arabidopsis thaliana), 3'ss of exon 5
ttgtgtagagtggtgttaacttttaacttttcatatttatctgattgtttccagtttc-tgttaaat----ttgaaaattgcttctttttttggt-acttttacagAGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTTGCTTTTCACATGAAG
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----tctgaattctgatgg--ttggagttttgaggaatgactaaatgtgtcttattcaatgagaaaggtcactgagtcatatttatctacctgttcattatctcagAGTGAGGAGGCCTCTATTGACGATTTAATGGAGCTTGTGCAACAAATTGTTGCTTTTCACATGAAG
upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 6
lower sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 5
----------------------------------------------------------ttgtgtagagtggtgttaacttttaacttttcatatttatc-tgattgtttccagtttctgttaaatttgaaaattgcttctttttttggtacttttacagAGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTTGCTTTTCACATGAAG
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gttagtaaacaatttggtctttggcaatgttctttagctcgaggagtttcactcatattctggcaacgtcatggatattatggtttgttaatgaatattatgacaatgggc--tcgttactgaatatggttataatgctcattctttttgttatatcagGGTGAAGAGTCCTCTATTGAAGACTTAATGGATCTTGTGCAGCAAATTGTTTCTTTTCACATGAAG
upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 6
ttgtgtagagtggtgttaacttttaacttttcatatttatctgattgtttccagtttctgttaaatttgaaaattgcttctttttttggtacttttacagAGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTTGCTTTTCACATGAAG
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gtgtccaatgctaacctcactaggatttattgctctatagtgtcctcttctgaattgttaaggactgtttattttattttttttgcatttactgttacagAGTGAAGAGGCTCCAATTGATGATCTAATGGAGCTCGTACAACAAATTGTTGCTTTTCACATGAAGMapped 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|208028183|gb|GD826273.1|GD826273EST: GAATCTAGCTGGAGAAATTGCTCAGGAATACACAAAACGACAG AGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTT
genomic: GAATCTAGCTGGAGAAATTGCTCAGGAATACACAAAACGACAGgttggtcatt ... acttttacagAGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTT
EST:
gi|213617174|gb|DB971293.1|DB971293EST: GAATCTAGCTGGAGAAATTGCTCAGGAATACACAAAACGACAG AGTGAAGAGGCCCCCATAGATG
genomic: GAATCTAGCTGGAGAAATTGCTCAGGAATACACAAAACGACAGgttggtcatt ... acttttacagAGTGAAGAGGCCCCCATAGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttccagtttctgttaaatttgaaaattgcttctttttttggtacttttacagAGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTTGCTTTTCACATGAAG
tactttt CT-rich tract
ttaaatttgaaaattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtgtagagtggtgttaacttttaacttttcatatttatctgattgtttccagtttctgttaaatttgaaaattgcttctttttttggtacttttacagAGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTTGCTTTTCACATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - agtggtg
- - - - - - - - - - - - - - - - - - - - - - -tgtttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - -gtttctg