Sequence
atgc intronic sequence ATGC exonic sequencegttactttataaggtttactttgcagttgaagttccttccccatttacaaaagttatatttttgagctcatgtgttagactactgattgtttttttaatcattctttttgttggtcgatttccaccaaaatccagAGTAGTAGGTGGCCTTCTTAGTGCATATGATCTTTCAGGGGACAAAGTATTCCTCGACAAAGCAATAGAAATTGCAGACAGATTACTGCCTGCATGGAAT
Basic information
species | Glycine max |
transcript | GLYMA08G23730.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 3'ss of exon 5
gttac-tttataaggtttactttgcagttgaagttccttccccatttacaaaagttatatttttgagctcatgtgtt------agactactgattgttttttt---aatcat--tctttttgttggtcgatttccacc-----aaaatccagAGTAGTAGGTGGCCTTCTTAGTGCATATGATCTTTCAGGGGACAAAGTATTCCTCGACAAAGCAATAGAAATTGCAGACAGATTACTGCCTGCATGGAAT
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gttgcatttaacaggtttaccatgtttttt---ttctacatgtactaagaagagtcatcttgtttaggttatctgttgtgtgtagttaacaaaatatgtggtatggaagtgtggcatctgtgcttatatattttctctttgttggctttcagAGTGGTAGGAGGGCTTCTCAGTGCGTATGATCTTTCTGGGGATAAAATTTTCCTTGAAAAGGCTATGGATATTGCAGACAGATTATTGCCTGCATGGGAC
upper sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 5
gttactttataaggtttactttgcagttgaagttccttccccat--ttacaaaagttatatt-tttgagctcatgtgttag-actactgattgtttttttaat----cattctttttgttggtcgatttccaccaaaatccagAGTAGTAGGTGGCCTTCTTAGTGCATATGATCTTTCAGGGGACAAAGTATTCCTCGACAAAGCAATAGAAATTGCAGACAGATTACTGCCTGCATGGAAT
|| ||||| |||||||| || |||| ||| | || | || ||| | || |||| | | || ||| | | || || ||| || | | | | | | | |||||| ||||| || ||||||||||| ||||||||||| ||||||||| | ||||| || || || | || ||||||||||||||| ||||||||||||||
gtggctttaacaggtttac--tgtggttgtt-ttctgtaattatcgtaggaagagtcagtttatttgcgattatcagttggtgacataagatggggaacggatattgcatctgcttatattctttttctttatctgccttcagAGTTGTAGGCGGACTTCTTAGTGCGTATGATCTTTCTGGGGACAAAATGTTCCTTGAAAAGGCTAAGGATATTGCAGACAGATTATTGCCTGCATGGAAT
upper sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 5
----------------------------------------------gttactttataaggtttactttgcagttgaagttccttccccatttacaaaagttatattt---ttgagctcatgtgtta--gactactgattgtt---tttttaatcattctttttgttggtcgatttccaccaaaatccagAGTAGTAGGTGGCCTTCTTAGTGCATATGATCTTTCAGGGGACAAAGTATTCCTCGACAAAGCAATAGAAATTGCAGACAGATTACTGCCTGCATGGAAT
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gttgcattataaggtttaatatgtagattgtttaatttgtcctttctcttgttcggaagaccagttatg-ggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttatt-ttattttattctttttgaaatccagAGTTGTGGGTGGACTACTTAGTGCATATGATCTCTCAGAGGACAAACTTTTCCTTGAAAAAGCTAGAGATATTGCAGATAGGTTGCTGCCTGCCTGGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactgattgtttttttaatcattctttttgttggtcgatttccaccaaaatccagAGTAGTAGGTGGCCTTCTTAGTGCATATGATCTTTCAGGGGACAAAGTATTCCTCGACAAAGCAATAGAAATTGCAGACAGATTACTGCCTGCATGGAAT
tttccacc CT-rich tract
attgtttttttaatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttactttataaggtttactttgcagttgaagttccttccccatttacaaaagttatatttttgagctcatgtgttagactactgattgtttttttaatcattctttttgttggtcgatttccaccaaaatccagAGTAGTAGGTGGCCTTCTTAGTGCATATGATCTTTCAGGGGACAAAGTATTCCTCGACAAAGCAATAGAAATTGCAGACAGATTACTGCCTGCATGGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA