Sequence
atgc intronic sequence ATGC exonic sequencegttataacgtttgtactcttatgttattcgaccactccattgatttatactatgattttgacttgagatacttctagaattattcttccaggatggctgctattgattacacagtttgtcttcacagTGAGGTGTTTGTCACAACTCAGGGAGGCAACTTCCCTCATTTTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGAT
Basic information
species | Glycine max |
transcript | GLYMA20G02130.3 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G02130.3 (Glycine max), 3'ss of exon 8
lower sequence: AT1G14970.1 (Arabidopsis thaliana), 3'ss of exon 8
gttataacgtttgtactcttatgttattcgaccactcc--attgatttatactatgattttgacttgagatact---tctagaattattcttccaggatggctgctattgattacacagtttgtcttcacagTGAGGTGTTTGTCACAACTCAGGGAGGCAACTTCCCTCATTTTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGAT
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------gtttctacgattttccactgtttgttcatccaggatgagtcctttctgacttgtaaacttatgtgtctgtgtttagAACTTCTCCTCGAGAATGGCTGCAATAGATTACACGGTGTGTCTCCACAGTGAGGTATTTGTGACAACACAAGGTGGAAACTTCCCTCATTTCCTCATGG--------------------------------------------------
upper sequence: GLYMA20G02130.3 (Glycine max), 3'ss of exon 8
lower sequence: AT2G01480.1 (Arabidopsis thaliana), 3'ss of exon 8
-gttataacgtttgtactcttatgttattcgaccactccattgatttatactatgattttgacttgagatact---tctagaattattcttccaggatggctgctattgattacacagtttgtcttcacagTGAGGTGTTTGTCACAACTCAGGGAGGCAACTTCCCTCATTTTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGAT
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gtttgcttctttcctggtgtt-tgttccagagtatatttctcgtgatgaatgataaatctgacttgaaactctgtgttcagAATTTCTCTTCCAGAATGGCTGCAATAGATTACACGGTCTGTCTCCACAGTGAGGTATTTGTGACCACGCAAGGTGGAAACTTTCCTCATTTCCTCATGG--------------------------------------------------
upper sequence: GLYMA20G02130.3 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0011g05000.t01 (Vitis vinifera), 3'ss of exon 8
gttataacgtttgtactcttatgttat--tcgaccact--ccattgatttat-actatgattttgacttgagatact---tctagaattattcttccaggatggctgctattgattacacagtttgtcttcacagTGAGGTGTTTGTCACAACTCAGGGAGGCAACTTCCCTCATTTTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGAT
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gtacgagtgttgccagttttattcaatcttcagtttgtgatctctgatttaccgatgttgatttgacttgggttgctgcttctagAACTATTCTTCCAGGATGGCTGCTATAGACTACACTGTTTGTCTTCACAGTGAAGTATTTGTGACAACTCAAGGTGGAAACTTCCCTCATTTTCTAATGG--------------------------------------------------Mapped 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|7588749|gb|AW704538.1|AW704538EST: TACATACTAAGGAGACCCTAGCTTCTGAAGAGGAGCTTGCTCCATTTAAG TGAGGTGTTTGTCACAACTCAGGGAGGCAACTTCCCTCATTTTCTGCTGGG
genomic: TACATACTAAGGAGACCCTAGCTTCTGAAGAGGAGCTTGCTCCATTTAAGgttataacgt ... gtcttcacagTGAGGTGTTTGTCACAACTCAGGGAGGCAACTTCCCTCATTTTCTGCTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctagaattattcttccaggatggctgctattgattacacagtttgtcttcacagTGAGGTGTTTGTCACAACTCAGGGAGGCAACTTCCCTCATTTTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGAT
tattgat putative branch site (score: 3)
tttgtcttc putative PPT
aattattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttataacgtttgtactcttatgttattcgaccactccattgatttatactatgattttgacttgagatacttctagaattattcttccaggatggctgctattgattacacagtttgtcttcacagTGAGGTGTTTGTCACAACTCAGGGAGGCAACTTCCCTCATTTTCTGCTGGGTCACAGAAGATACTTGTATGGTGGACATTCCAAGACAATTAAACCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA