Sequence
atgc intronic sequence ATGC exonic sequence...agtataaatttatccagatatgtggggatgtattttgttcaaatcaatatctgctaatttccgaaacattctagtttgtgttaacgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAATTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
Basic information
species | Glycine max |
transcript | GLYMA10G00530.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 16
-------------------------------------------------------------------------------agtataaatttatccagatatgtggggatgtattttgttca--aatcaatatctgctaatttccgaaaca---ttctagtt-tgtgttaacgagaaatttgaac--------------agGGATGGTGTAAGTGAAGGGCAATTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
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gtatgctactgcaaatactgtttataaactaacgtttgtagagtacagtagttagatatttgtggaatcaatttaatcctatgtatcttcaacaagtactgaacctagtgtttttgttcgctatttgaagtatgaaagttgctgttataggcttctatttgtatatctgctaatagtatcggtactgcttctcttctagGGATGGTGTCAGTGAAGGCCAATTCTACCAAGTTCTCCTCTATGAGTTGGATGCTATCCGCAAG
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 16
agtataaatttatccagatatgtggggatgtattttgttcaaatcaatatctgctaatttccgaaacattctagtttgtgttaacgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAATTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
| | | | |||| | ||| | ||| | |||| || || ||||| | | ||| | ||| ||||| ||||| ||||||||||| || |||||| |||| |||||||||||||||||||| |||
-------------gtaagtctctctttgctcatttaagtaaaagaattatat-ctaaaacccacaat----tagttctcatggttgttttattcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
agtataaatttatccagatatgtggggatgtattttgttcaaatcaatatctgctaatttccgaaaca-ttctagtttgtgttaacgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAATTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
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-ggatctctatgtgcagtgtcctcacaaattactgcatgtgcatcattaagctcttttcatagttacaattcttatcctgatcagatattaatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatctgctaatttccgaaacattctagtttgtgttaacgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAATTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
tgttaac putative branch site (score: 2)
aaatttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtataaatttatccagatatgtggggatgtattttgttcaaatcaatatctgctaatttccgaaacattctagtttgtgttaacgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAATTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG
- - - - - - - - - - - -ggggatg
- - - - - - - - - - - - - - - - - - - - - - - - -tctgcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtttgtg