Sequence
atgc intronic sequence ATGC exonic sequencegtttgtactttcaattctcatattactgaacattcatacatgctgcgtacagaaattgcatttaaagtagctctaatttctaacacacttatttttgcagTTACATGGCTCCTGAATACTTCATGTACGGTAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCTGGAAGAAAG
Basic information
species | Glycine max |
transcript | GLYMA14G24660.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G24660.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g62340.1 (Oryza sativa), 3'ss of exon 6
gtttgtactttcaattctcatattactgaacattcatacatgctgcgtacagaaattgcatttaaagtagctctaatttctaacacacttatttttgcagTTACATGGCTCCTGAATACTTCATGTACGGTAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCTGGAAGAAAG
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----gtaagtaccatctctatgctattt----ttaccagctattgc-tacttttatcaagtgtgaaatg--cctaagc----aaactactcctgtgacagATACTTGGCTCCCGAGTATTTTTCGCACGGGAAGGTCAATGAGAAGATTGATGTCTATGCATTTGGAGTTGTAATTCTGGAGATTATTTCAGGAAGAAGA
upper sequence: GLYMA14G24660.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G77280.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttgtactttcaattctcatattactgaacattcatacatgctgcgtacagaaattgcatttaaagtagctctaatttctaacacacttatttttgcagTTACATGGCTCCTGAATACTTCATGTACGGTAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCTGGAAGAAAG
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---------------gtatgaagtactctaggttt-tgggtaatgtttcatgaaagttc--ttgaaaatgttcttgtgctaatcttctgtttttgtgcagATACTTGGCTCCAGAGTACTTCATGTATGGTAAGGTGAATGATAAGATAGATGTGTATGCATTCGGCGTTGTTCTCCTCGAGTTACTTTCGGGAAGAAAA
upper sequence: GLYMA14G24660.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 7
------------------------------------------------------gtttgtactttcaat---tctcatattactgaac----attcatacatgctgcgtacagaaattgc-atttaaagtagctctaatttctaacacac-ttatttttgcagTTACATGGCTCCTGAATACTTCATGTACGGTAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCTGGAAGAAAG
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gtttgtgcttcttctctagtagctataacttctatgtcccacattcttgtcatttttcagaagatcaataaaccccactattttgaattatggctttaaaatcttgagtaaaaaagttattacttgtcattgagaaagttcagaacatttattttctctgcagTTACATGGCTCCTGAATACTTCATGTATGGCAAAGTAAATGAGAAGATAGATGTCTACGCATTTGGTGTTGTCCTCCTTGAGCTTCTTTCGGGAAGAAAAMapped 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|7028593|gb|AW458376.1|AW458376EST: TCGACCACTTCATCACATATAATCTGCACCGATGTTGCTGGAACCTTTGG TTACATGGCTCCTGAATACTTCATGTACGGTTAAGTAAATGACAAGATTGA
genomic: TCGACCACTTCATCACATATAATCTGCACCGATGTTGCTGGAACCTTTGGgtttgtactt ... atttttgcagTTACATGGCTCCTGAATACTTCATGTACGGTAAAGTAAATGACAAGATTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtacagaaattgcatttaaagtagctctaatttctaacacacttatttttgcagTTACATGGCTCCTGAATACTTCATGTACGGTAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCTGGAAGAAAG
ttctaac putative branch site (score: 1)
cttattttt putative PPT
aaattgcatttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtactttcaattctcatattactgaacattcatacatgctgcgtacagaaattgcatttaaagtagctctaatttctaacacacttatttttgcagTTACATGGCTCCTGAATACTTCATGTACGGTAAAGTAAATGACAAGATTGATGTCTATGCATTTGGTGTAGTGCTTCTTGAGCTTCTTTCTGGAAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA