Sequence
atgc intronic sequence ATGC exonic sequencegtttgtatagtcttccttctctattgttggcccattccttccttacaagtatcggtcattatgggtttccagcaattgccttacttgtttttctttttgcagATATGTTGCTCCTGAATACGCAAGTACTGGCATGTTGAATGAACGGAGTGATGTTTATAGTTTTGGAATTCTAATTATGGAACTAATTACAGGAAGGAAT
Basic information
species | Glycine max |
transcript | GLYMA01G39420.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g35080.1 (Oryza sativa), 3'ss of exon 4
gtttgtatagtcttccttctctattgttggcccattccttccttacaa-gtatcggtcat-tatgggtttccagcaattgcctta--cttgtttttctttttgcagATATGTTGCTCCTGAATACGCAAGTACTGGCATGTTGAATGAACGGAGTGATGTTTATAGTTTTGGAATTCTAATTATGGAACTAATTACAGGAAGGAAT
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-------------------------gttagaaattagcacccttgtaatgtgataattgtacaagacacatgaatattttgcttatgcatcttttgttctttgcagGTACGTAGCTCCAGAGTATGCTGGTACTGGCATGTTAAATGAAACTAGTGATGTCTATAGTTTTGGAATTCTTATCATGGAAATAATATCTGGTCGGGTA
upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G050861_T01 (Zea mays), 3'ss of exon 4
gtttgtatagtcttccttctctattgttggcccattccttccttacaagtatcggtcattatgggtttccagcaattgccttactt---gtttttctttttgcagATATGTTGCTCCTGAATACGCAAGTACTGGCATGTTGAATGAACGGAGTGATGTTTATAGTTTTGGAATTCTAATTATGGAACTAATTACAGGAAGGAAT
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------------------gttagacatcaacgc-tgcttataagattaggatcctccaagataaacaagtttgtggtggcttattttaaattttgttgcttgcagGTATGTTGCACCAGAGTATGCGGGCACTGGCATGTTGAATGAAACTAGCGATGTCTATAGTTTCGGAATTCTTATCATGGAAATAATATCTGGCCGTGTA
upper sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g00480.t01 (Vitis vinifera), 3'ss of exon 4
gtttgtatagtcttccttctctattgttggcccattccttccttacaagtatcggtcattatgggtttccagcaattgccttacttgtttttctttttgcagATATGTTGCTCCTGAATACGCAAGTACTGGCATGTTGAATGAACGGAGTGATGTTTATAGTTTTGGAATTCTAATTATGGAACTAATTACAGGAAGGAAT
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gtatgtatgatctttctccttccctctt--ccccttcccttctctc------ctgtgaagaagaggtggtgac--------tatttgtttctgtttttgtagCTATGTAGCTCCTGAATATGCAAGTACAGGCATGTTGAATGAAAGAAGTGATGTGTATAGTTTTGGGATTCTTATCATGGAAATAATTTCTGGGAGGAATMapped 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|192323263|gb|FK015269.1|FK015269EST: CTTGGCTCCGACAACAGCTATATTACAACCCGTGTCATGGGTACATTTGG ATATGTTGCTCCTGAATACGCAAGTACTGGCATGTTGAATGAACGGAGTGA
genomic: CTTGGCTCCGACAACAGCTATATTACAACCCGTGTCATGGGTACATTTGGgtttgtatag ... ctttttgcagATATGTTGCTCCTGAATACGCAAGTACTGGCATGTTGAATGAACGGAGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtatcggtcattatgggtttccagcaattgccttacttgtttttctttttgcagATATGTTGCTCCTGAATACGCAAGTACTGGCATGTTGAATGAACGGAGTGATGTTTATAGTTTTGGAATTCTAATTATGGAACTAATTACAGGAAGGAAT
gccttac putative branch site (score: 3)
ttgccttacttgtttt CT-rich tract
ttgtttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtatagtcttccttctctattgttggcccattccttccttacaagtatcggtcattatgggtttccagcaattgccttacttgtttttctttttgcagATATGTTGCTCCTGAATACGCAAGTACTGGCATGTTGAATGAACGGAGTGATGTTTATAGTTTTGGAATTCTAATTATGGAACTAATTACAGGAAGGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA