Sequence
atgc intronic sequence ATGC exonic sequence...atcatttaccgagctagttattgcttgataagtttgtcctggaaaagtttgaattttcaaacttacataccctcttatgtttcaaacttcttgtaaatagGTAAAGTGTGTGATGCTGTTGAAGTAGCTGGAAAAAATGTCATGTCAACATCATCAACTGTGACAACTGAGCTTGTCGATCACAG
Basic information
species | Glycine max |
transcript | GLYMA01G36960.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G36960.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G51250.1 (Arabidopsis thaliana), 3'ss of exon 2
atcatttaccgagctagttattgcttgataagtttgtcctggaaaagtttgaattttcaaacttacataccct-cttatgtttcaaacttcttgtaaatagGTAAAGTGTGTGATGCTGTTGAAGTAGCTGGAAAAAATGTCATGTCAACATCATCAACTGTGACAACTGAGCTTGTCGATCACAG
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aatgttttgtaatcgctggcttcccttatataccgaacccttttttgtttaaggcacatgggattagtacccttcttttcatgtttacttcttgttg-cagGCAAGATCTGTGATGCTGTTGAAGTTGCTGGGAAAAACGTAATGTCGACTTCATCAACTGTCACAACAGAATTAGTCAATCACAG
upper sequence: GLYMA01G36960.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0023g03670.t01 (Vitis vinifera), 3'ss of exon 2
------atcatttaccgagctagttattgcttgata-agtttgtcctggaaaagtttgaattttcaaacttacataccctcttatgtttcaaacttcttgt-aaatagGTAAAGTGTGTGATGCTGTTGAAGTAGCTGGAAAAAATGTCATGTCAACATCATCAACTGTGACAACTGAGCTTGTCGATCACAG
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gctttccacatgtgtatggct--ctgcttcctaatgcagtttattttgttttatttt--atttttg----tgtatttttttcttttttttttacctctcgtgaaatagGTAAGGTCTGTGATGCGGTTGAAGTAGCCGGAAGGAATGTTATGTCAACATCATCCACTGTGACCACTGGACTTGTGTCACATAGMapped 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|308098778|gb|HO760519.1|HO760519EST: TTTCAGCTTTCTACCGGGGGAAGTTCTGCTTGCATCGTTGGATGGATTCA GTAAAGTGTGTGATGCTGTTGAAGTAACTGGAAAAAATGTCATGTCAACAT
genomic: TTTCAGCTTTCTACCGGGGGAAGTTCTGCTTGCATCGTTGGATGGATTCAgtatgtcagt ... ttgtaaatagGTAAAGTGTGTGATGCTGTTGAAGTAGCTGGAAAAAATGTCATGTCAACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttgaattttcaaacttacataccctcttatgtttcaaacttcttgtaaatagGTAAAGTGTGTGATGCTGTTGAAGTAGCTGGAAAAAATGTCATGTCAACATCATCAACTGTGACAACTGAGCTTGTCGATCACAG
aacttac putative branch site (score: 2)
cttcttgt putative PPT
aattttcaaactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcatttaccgagctagttattgcttgataagtttgtcctggaaaagtttgaattttcaaacttacataccctcttatgtttcaaacttcttgtaaatagGTAAAGTGTGTGATGCTGTTGAAGTAGCTGGAAAAAATGTCATGTCAACATCATCAACTGTGACAACTGAGCTTGTCGATCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - -tgcttga
- - - - - - - - - - - - - - - - - - tcctgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaact