Sequence
atgc intronic sequence ATGC exonic sequence...aaaaaatattaatgttgcagtccaaatcaaattggttgattattttttaaaaccttgttctgaagcttatgtactttagttttttttctcctttgagtagATGGTCCGCAATAGCAAGTCACCTACCGGGTCGGACAGATAATGAAATCAAGAATTTTTGGAACACCCATCTCAAGAAGAAGCTTATTCAAATGGGTTAT
Basic information
species | Glycine max |
transcript | GLYMA02G13770.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G13770.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os06g11780.1 (Oryza sativa), 3'ss of exon 2
aaaaaatattaatgttgcagtccaaatcaaattggttgattattttttaaaaccttgttctgaagcttatgtactttagttttttttctcctttgagtagATGGTCCGCAATAGCAAGTCACCTACCGGGTCGGACAGATAATGAAATCAAGAATTTTTGGAACACCCATCTCAAGAAGAAGCTTATTCAAATGGGTTAT
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----------------gtaatacc--tgaacctagctgac-atttcataatcccc------aaagc--aagtgttttggctaatctg-tgagcaaaccagGTGGTCAGCTATTGCAAAGCATCTCCCTGGACGGACAGATAACGAGATCAAGAACTTCTGGAACACCCACCTCAGGAAGAAACTGATCAAGATGGGCATT
upper sequence: GLYMA02G13770.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G159547_T01 (Zea mays), 3'ss of exon 2
aaaaaatattaatgttgcagtccaaatcaaattggttg-attattttttaaaaccttgttc---tgaagcttatgtact-ttagttttttttctcctttgagtagATGGTCCGCAATAGCAAGTCACCTACCGGGTCGGACAGATAATGAAATCAAGAATTTTTGGAACACCCATCTCAAGAAGAAGCTTATTCAAATGGGTTAT
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----gctagtt-tgtttcactctaacttcaataactcgtatttttgacttgtacgtagtgcatgctatgctaatccagtgtcaactgttgtcatggtcaaaccagATGGTCAGCTATCGCAAAGCACCTCCCTGGGCGGACTGATAACGAGATCAAGAATTTCTGGAACACGCACCTGAAGAAGAAGCTCATCCAGATGGGCTTC
upper sequence: GLYMA02G13770.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g05670.t01 (Vitis vinifera), 3'ss of exon 2
aaaaaatattaatgttgcagtccaaatcaaattggttgattattttttaaaaccttgttctgaagcttatgtact-ttagtt---ttttttctcctttgagtagATGGTCCGCAATAGCAAGTCACCTACCGGGTCGGACAGATAATGAAATCAAGAATTTTTGGAACACCCATCTCAAGAAGAAGCTTATTCAAATGGGTTAT
|| | ||| | | || | |||| || ||||| ||| | | || | | |||| | | ||||||||||||||| ||| ||||| || || ||||| || || ||||| |||||||| ||||| |||||||| ||||||||||| ||||| ||||| | |
---------------------gtaagcctaataaacttctgcttccatgaaacaaaaccctcaagctcatgcattactaatccaatatttttgtccacaattagATGGTCCGCAATTGCATCGCACCTCCCTGGCCGGACGGACAACGAAATTAAGAATTTCTGGAATACCCATCTAAAGAAGAAGCTCATTCAGATGGGGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaaaaccttgttctgaagcttatgtactttagttttttttctcctttgagtagATGGTCCGCAATAGCAAGTCACCTACCGGGTCGGACAGATAATGAAATCAAGAATTTTTGGAACACCCATCTCAAGAAGAAGCTTATTCAAATGGGTTAT
tactttagtttttttt CT-rich tract
ttatgtactttagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaaatattaatgttgcagtccaaatcaaattggttgattattttttaaaaccttgttctgaagcttatgtactttagttttttttctcctttgagtagATGGTCCGCAATAGCAAGTCACCTACCGGGTCGGACAGATAATGAAATCAAGAATTTTTGGAACACCCATCTCAAGAAGAAGCTTATTCAAATGGGTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
aaaaaat
- - - - - - - -tgcagtc
- - - - - - - - - - - - - - - - - - - - - - - - - - -cttgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttatg