Sequence
atgc intronic sequence ATGC exonic sequence...tggtttagaataccatttgcaggtaaggatttgttacatttgaggtgtgagattgttgtggttgaggattggactatgaaaaagtttggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGGTCCACACCAAAGATGAGTAAACGGAACTTGTTCTGGGTGGTTAGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G700221_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g39520.2 (Oryza sativa), 3'ss of exon 2
tggtttagaataccatttgcaggtaaggatttgttacatttgaggtgtgagattgttgtggttgaggattggactatgaaaaagttt--ggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGGTCCACACCAAAGATGAGTAAACGGAACTTGTTCTGGGTGGTTAGCC
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----------------------gtgaaatattgtgaattttcaggcgtcggattgctcgggctgggcatcagaacattgaaatgtttttggttttgatgcagGAAACCGCACTGAATCATGTGAAGAGCGCTGGGCTGCTAGGAGATGGTTTTGGCTCAACGCCAGAGATGAGTAAACGAGACTTGTTCTGGGTTGTCAGCC
upper sequence: GRMZM2G700221_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G21910.1 (Glycine max), 3'ss of exon 2
--tggtttagaataccatttgcaggtaaggatttgttacatttgaggtgtgagattgttgtggttgaggattggactatgaaaaagtttggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGGTCCACACCAAAGATGAGTAAACGGAACTTGTTCTGGGTGGTTAGCC
| ||| ||| || || ||| | || ||| | | || ||| | | || ||| || || || | ||||| || ||||||||||||| ||||| |||||||| || ||||||||||| || ||||| || | ||| | ||| |||| || | |||||||| |
atcaaagaacaatgccaaaaacacctatggaatc--taagttttgtgcaattgcttattgatgattttattttattgcctaaattgtctgttttccaaacagGAGACTGCACTTAATCATGTTAAGACTGCTGGGCTTCTTGGTGATGGATTTGGTTCCACGCCTGAAATGTGCAAAAAGAACCTGATATGGGTGGTGACTA
upper sequence: GRMZM2G700221_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G23560.1 (Glycine max), 3'ss of exon 2
tggtttagaataccatttgcaggtaaggatttgt-tacatttgaggtgtgagattgttgtggttgag-gattggactatgaaaaagtttggatttg-atccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGGTCCACACCAAAGATGAGTAAACGGAACTTGTTCTGGGTGGTTAGCC
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--aatgggaaaaacacctatggaaactaagttttgtacaattgca-tattgatttattttattttattgtttgaattgtttgtttatttaaaaaaacaaacagGAGACTGCACTTAATCATGTTAAGACCGCTGGGCTTCTAGGTGATGGATTTGGTTCCACGCCTGAAATGTGTAAGAAGAACCTGATATGGGTGGTGACTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgagattgttgtggttgaggattggactatgaaaaagtttggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGGTCCACACCAAAGATGAGTAAACGGAACTTGTTCTGGGTGGTTAGCC
atttgat putative branch site (score: 5)
tatgaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtttagaataccatttgcaggtaaggatttgttacatttgaggtgtgagattgttgtggttgaggattggactatgaaaaagtttggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGGTCCACACCAAAGATGAGTAAACGGAACTTGTTCTGGGTGGTTAGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - -catttgc
- - - - - - - - - - - - - - - - - tacattt
- - - - - - - - - - - - - - - - - - - - - - - - - - ttgttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgaaaaa