Sequence
atgc intronic sequence ATGC exonic sequence...tgacacctaaaatttggtggatatgaaagtttattattgttgtaatttttgttgttgtcgtatatagaaaatttatatatttgttttcatacatttgaagTGTACAAGAAACATTACCCACCTAAGCTCAATGACGAAGTGTGGCGCCTAGAGAAGATTGGTAAAGACGGAGCTTTCCACAAAAAATTGTCCAAAGAGGG
Basic information
species | Glycine max |
transcript | GLYMA05G34760.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G34760.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G73805.1 (Arabidopsis thaliana), 3'ss of exon 3
tgacaccta---aaatttggtggatatgaaagtttattattgttgtaatttttgttgttgtcgtatatagaaaatttatatatttgttttcatacatttgaagTGTACAAGAAACATTACCCACCTAAGCTCAATGACGAAGTGTGGCGCCTAGAGAAGATTGGTAAAGACGGAGCTTTCCACAAAAAATTGTCCAAAGAGGG
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aaacacatgcataaagcgaatacatat-aaagaagatacatagtagaaaactagatataattctaaatagtt--ttgttttgtacaacttggggttggtgaagTGTACAAGAAACATCACCCACCAATGTTAGAAGACGAAGTGTGGCGGCTAGAGAAGATAGGCAAAGATGGGGCCTTTCACAAGAAGCTCTCCTCTCGCCA
upper sequence: GLYMA05G34760.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g03380.t01 (Vitis vinifera), 3'ss of exon 3
tgacacctaaaatttggtggatatgaaagtttattattgttgtaatttttgttgttgtcgtatatagaa-aatttatatatttgttttc-atacatttgaa--gTGTACAAGAAACATTACCCACCTAAGCTCAATGACGAAGTGTGGCGCCTAGAGAAGATTGGTAAAGACGGAGCTTTCCACAAAAAATTGTCCAAAGAGGG
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tatttcataaaatt-aatg--ctttaacctcaaacaccaaacacagtgacatt-ttcttatagatagagtaacctttcttttggctttctatatatacaaacagTGTACAGAAAACACCATCCACCTATGCTGAATGACGATGTTTGGCGTCTAGAAAATATTAGTAAAGATGGAGCTTTCCACAAGAGGCTAGCCTTCAAGCA
upper sequence: GLYMA05G34760.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S51_322V6.1 (Physcomitrella patens), 3'ss of exon 4
-----tgacacctaaaatttggtggatatgaaagtttattattgttgtaatt--tttgttgttgtcgtatatagaaaatttatatatttgttttcatacatttgaagTGTACAAGAAACATTACCCACCTAAGCTCAATGACGAAGTGTGGCGCCTAGAGAAGATTGGTAAAGACGGAGCTTTCCACAAAAAATTGTCCAAAGAGGG
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ttgttcggtgccaaagtttt--tgaaaaaaagaatcaggcagcatggtacttgattggatgcaaccacttacag-----ttttctttgtgctgaaactttcgtgcagTGTACAAAAAGCACTACCCACCTGCCTTGAATGACGAGGTGTGGCGCTTGGACAAGATTGGGAAAGATGGTGCTTTCCACAAGCGTCTTAATCAAGCCAAMapped 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|192300286|gb|FG988793.1|FG988793EST: TCGTCAAGGA-TGACTGAGCCATTTGTTGT-A-G-ATCACCGTGGTGA-T TGTACA-GAAACATT
genomic: TCGTCAAGGAATGACTGAGCCATTTGTTGTTAAGGATCACCGTGGTGAATgtaagtacta ... acatttgaagTGTACAAGAAACATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgttgttgtcgtatatagaaaatttatatatttgttttcatacatttgaagTGTACAAGAAACATTACCCACCTAAGCTCAATGACGAAGTGTGGCGCCTAGAGAAGATTGGTAAAGACGGAGCTTTCCACAAAAAATTGTCCAAAGAGGG
tatatagaaaatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgacacctaaaatttggtggatatgaaagtttattattgttgtaatttttgttgttgtcgtatatagaaaatttatatatttgttttcatacatttgaagTGTACAAGAAACATTACCCACCTAAGCTCAATGACGAAGTGTGGCGCCTAGAGAAGATTGGTAAAGACGGAGCTTTCCACAAAAAATTGTCCAAAGAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- -cacctaa
- - - - - - - tggtgga
- - - - - - - - - - - - - - - - - - -tgttgta
- - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtc