Sequence
atgc intronic sequence ATGC exonic sequencegtgtttattttcttgtccttttccttaagatatcaaactccagtattcgtaaattagatactaactaggttagaccttttggcatagtgcagtgaccctgcttcacttagaaattattttgctgctttctttcttcacctccagtgctggttcttttcttttaattaacaaagggattatattgatttgcagGGAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTATGATATTATACGGCCAGATGTTGCTCTTGAGCTATCTTGGATGAACAATATGATTGATT
Basic information
species | Glycine max |
transcript | GLYMA01G38580.1 |
intron # | 27 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 27
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 27
gtgtttattttcttgtccttttccttaagatatcaaactccagtattcgtaaattagatactaactaggttagaccttttggcatagtgcagtgaccctgcttcacttagaaattattttgctgctttctttcttcacctccagtgctggttcttttcttttaattaacaaagggattatattgatttgcagGGAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTATGATATTATACGGCCAGATGTTGCTCTTGAGCTATCTTGGATGAACAATATGATTGATT
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-----------------------------------------------------------------------------------------caattgaagtgaaacaagca-agctcacctgattttttttattatttaggcataatctgtattgcattctgatgagtaacatct--ataattgtgtattgcagGGAAAGAAAGAATGCTTTGCTTCTTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 27
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 27
gtgtttattttcttgtccttttccttaagatatcaaactccagtattcgtaaattagatactaactaggttagaccttttggcatagtgcagtgaccctgcttcacttagaaattattttgctgctttctttcttcacctccagtgctggttcttttcttttaattaacaaagggattatattgatttgcagGGAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTATGATATTATACGGCCAGATGTTGCTCTTGAGCTATCTTGGATGAACAATATGATTGATT
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------------------------------------------------------------------------------------aattgaagtgaaacaagcaagctcacctgattttttatta--ttatttaggcataatctgtattg----cattctgatgagtaacatct--ataattgtgtattgcagGGAAAGAAAGAATGCTTTGCTTCTTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACT
upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 27
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 27
gtgtttattttcttgtccttttccttaagatatcaaactccagtattcgtaaattagatactaactaggttagaccttttggcatagtgcagtgaccctgcttcacttagaaattattttgctgctttctttcttcacctccagtgctggttcttttcttttaattaacaaagggattatattgatttgcagGGAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTATGATATTATACGGCCAGATGTTGCTCTTGAGCTATCTTGGATGAACAATATGATTGATT
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--------------------------------------------------------------------------tctattttcacctttcttccagcccacatg--ctagatgtg--tttgataaat-ctttttaaacccttgagaagtgtgttcattttctgcttaacg-------tgtat------gcagAAAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTACGATTTAATTCGGCCAGACGTTGTCCTTGAGCTTGCATGGATGAACAATATGATCGACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctccagtgctggttcttttcttttaattaacaaagggattatattgatttgcagGGAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTATGATATTATACGGCCAGATGTTGCTCTTGAGCTATCTTGGATGAACAATATGATTGATT
ttcttttcttttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtttattttcttgtccttttccttaagatatcaaactccagtattcgtaaattagatactaactaggttagaccttttggcatagtgcagtgaccctgcttcacttagaaattattttgctgctttctttcttcacctccagtgctggttcttttcttttaattaacaaagggattatattgatttgcagGGAAAGAAAGAGTGTTTTGCATCATGCCTCTTTGTCTGTTATGATATTATACGGCCAGATGTTGCTCTTGAGCTATCTTGGATGAACAATATGATTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG