Sequence
atgc intronic sequence ATGC exonic sequencegtatatgcccgtgtatccatagaaatcctaatgttcgaggggctcttttgttggtttagaataccatttgcaggtaaggatttgtcacatttgaggtgtgagattgttgtggctgaggattggactatgaaaaagtttggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGCTCCACACCAGAGATGAGTAAACGGAACTTGTTCTGGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G330521_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g39520.2 (Oryza sativa), 3'ss of exon 2
gtatatgcccgtgtatccatagaaatcctaatgttcgaggggctcttttgttggtttagaataccatttgcaggtaaggatttgtcacatttgaggtgtgagattgttgtggctgaggattggactatgaaaaagttt--ggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGCTCCACACCAGAGATGAGTAAACGGAACTTGTTCTGGGTG-------
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-------------------------------------------------------------------------gtgaaatattgtgaattttcaggcgtcggattgctcgggctgggcatcagaacattgaaatgtttttggttttgatgcagGAAACCGCACTGAATCATGTGAAGAGCGCTGGGCTGCTAGGAGATGGTTTTGGCTCAACGCCAGAGATGAGTAAACGAGACTTGTTCTGGGTTGTCAGCC
upper sequence: GRMZM2G330521_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G21910.1 (Glycine max), 3'ss of exon 2
gtatatgcccgtgtatccatagaaatcctaatgttcgaggggctcttttgttggtttagaataccatttgcaggtaaggatttgtcacatttgaggtgtgagattgttgtggctgaggattggactatgaaaaagtttggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGCTCCACACCAGAGATGAGTAAACGGAACTTGTTCTGGGTG-------
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-------------------------------------------------atcaaagaacaatgccaaaaacacctatggaatc--taagttttgtgcaattgcttattgatgattttattttattgcctaaattgtctgttttccaaacagGAGACTGCACTTAATCATGTTAAGACTGCTGGGCTTCTTGGTGATGGATTTGGTTCCACGCCTGAAATGTGCAAAAAGAACCTGATATGGGTGGTGACTA
upper sequence: GRMZM2G330521_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G23560.1 (Glycine max), 3'ss of exon 2
gtatatgcccgtgtatccatagaaatcctaatgttcgaggggctcttttgttggtttagaataccatttgcaggtaaggatttgtcacatttgaggtgtgagattgttgtggctgag-gattggactatgaaaaagtttggatttg-atccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGCTCCACACCAGAGATGAGTAAACGGAACTTGTTCTGGGTG-------
||| | || ||| | || | | | ||||| ||| ||| | | || || | | | | ||| | | | ||| | | ||||| || ||||||||||||| |||||||||||||| |||||||||||||| || ||||| || || ||| |||| |||| || | ||||||
-------------------------------------------------aatggga-aaaacacc-tatggaaactaagttttgt-acaattgca-tattgatttattttattttattgtttgaattgtttgtttatttaaaaaaacaaacagGAGACTGCACTTAATCATGTTAAGACCGCTGGGCTTCTAGGTGATGGATTTGGTTCCACGCCTGAAATGTGTAAGAAGAACCTGATATGGGTGGTGACTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgagattgttgtggctgaggattggactatgaaaaagtttggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGCTCCACACCAGAGATGAGTAAACGGAACTTGTTCTGGGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgcccgtgtatccatagaaatcctaatgttcgaggggctcttttgttggtttagaataccatttgcaggtaaggatttgtcacatttgaggtgtgagattgttgtggctgaggattggactatgaaaaagtttggatttgatccagGAAACGACACTTAATCATGTGAAGACCGCTGGGCTGCTAGGTGATGGATTCGGCTCCACACCAGAGATGAGTAAACGGAACTTGTTCTGGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG