Sequence
atgc intronic sequence ATGC exonic sequencegttggacattaaaataactcttttattcttacgttcagaaggttggtctctaacattatttttttagGGAGAAAACAAAGGATTTCTGGTTTGCAAGAAGAAAATGGGAACATCTCCTGAGACCCTATGCTGCTTTAGTCCCCTCCCTTTTAAGCAGTTTGTTGAAC
Basic information
species | Glycine max |
transcript | GLYMA08G21570.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G21570.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S176_7V6.1 (Physcomitrella patens), 3'ss of exon 8
gttggacattaaaataactcttttattcttacgttcagaaggttggtctctaacattatttttttagGGAGAAAACAAAGGATTTCTGGTTTGCAAGAAGAAAATGGGAACATCTCCTGAGACCCTATGCTGCTTTAGTCCCCTCCC--TTTTAAGCAGTT-TGTTGAAC-----------------------------------------------------------------------------------------
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-----------------------------------------------------------ttttgtagggcgacaacaaaggttttctggtgtggaagaagaaaatggcaacttctcctgaaattctgtgctgtttttgctcggttccgtttttaaacagACATTTTGGAGATGGTCGCAAATATGAAGTTCGATGAAGAGCCAAACCACGGCAAGCTCGTTCTACTCTTTGATTCCATCTTGAGTCCTAATCCTACTGT
upper sequence: GLYMA08G21570.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ31718 (Selaginella moellendorffii), 3'ss of exon 7
gttggacattaaaataactcttttattcttacgttcagaaggttggtctctaacattatttttttagGGAGAAAACAAAGGATTTCTGGTTTGCAAGAAGAAAATGGGAACATCTCCTGAGACCCTATGCTGCTTTAGTCCCCTCCCTTTTAAGCAGTTTGTTGAAC
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-----------gtcaggctgttttaatattttagtttta---ttgttttacatgggcgcttttatagGGAGACAATAAAGGATTTCTGGTCTGCAAAAAGAAAATGGCCACGTCCCCGGAGATGTTGTGCTGTTTCTGCCCGCCTCCATTCAAGCAGTTTTTGGAAA
upper sequence: GLYMA08G21570.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ38433 (Selaginella moellendorffii), 3'ss of exon 7
gttggacattaaaataactcttttattcttacgttcagaaggttggtctctaacattatttttttagGGAGAAAACAAAGGATTTCTGGTTTGCAAGAAGAAAATGGGAACATCTCCTGAGACCCTATGCTGCTTTAGTCCCCTCCCTTTTAAGCAGTTTGTTGAAC
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-------------gtcaggctgtt-ttaatatatt-agttttatgttttacatgggcgcttttatagGGAGACAATAAAGGATTTCTGGTCTGCAAAAAGAAAATGGCCACATCCCCGGAGATGTTGTGCTGTTTCTGCCCGCCTCCATTCAAGCAGTTTTTGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataactcttttattcttacgttcagaaggttggtctctaacattatttttttagGGAGAAAACAAAGGATTTCTGGTTTGCAAGAAGAAAATGGGAACATCTCCTGAGACCCTATGCTGCTTTAGTCCCCTCCCTTTTAAGCAGTTTGTTGAAC
ctctaac putative branch site (score: 2)
ttattttttt CT-rich tract
tctaacattatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggacattaaaataactcttttattcttacgttcagaaggttggtctctaacattatttttttagGGAGAAAACAAAGGATTTCTGGTTTGCAAGAAGAAAATGGGAACATCTCCTGAGACCCTATGCTGCTTTAGTCCCCTCCCTTTTAAGCAGTTTGTTGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT