Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgttgaaactgattagttcatttttacataatcagcagtgagcaaaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGATTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCAGAGAATATGAACTGGTATAGAAGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G431691_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 3'ss of exon 6
gtgagtgttgaaactgattagttcatttttacataatcagcagtgagcaaaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGATTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCAGAGAATATGAACTGGTATAGAAGGA
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gtgagtactggacctg-ccatttcatttcattgtgatcagcagggcataaaccatttgaaataaaatttg--cagTGCACTGAGGAAGCTCATCGTCCGGTAGACTGTGCCACTGTTTCAAAGTGGATCCTCAAGAACAGTGCGGAGTCTGAAAATATGAACTG-----------
upper sequence: GRMZM2G431691_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------gtgagtgttgaaactgattagtt----cattttt----acataatcagcagtgagcaaaccatat-attttcttctt------ttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGATTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCAGAGAATATGAACTGGTATAGAAGGA
|| || ||| || | || | |||| || | |||| || | | ||||| | | ||| || | | | ||||| | || |||||||| ||||| |||||||||| ||||||||| |||||| | | ||||| ||||| ||||| ||||||||||| ||
gtaagttacgctatcagttagagttagaatagtttcatctttccattgtttagaatttaattgaca-caactataccatgtcacttttatcgtcatgggtctgcagTGTGCTGAAGAAGCTCACCGTCCTGTAGATTGTGACACTGTTTCTAAGTGGGTATTGAAGAATAGTGCTGAGTCGGAGAATATGAATTG-----------
upper sequence: GRMZM2G431691_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ08409 (Selaginella moellendorffii), 3'ss of exon 6
gtgagtgttgaaactgattagttcatttttacataatcagcagtgagcaaaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGATTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCAGAGAATATGAACTGGTATAGAAGGA
| || || || ||| | ||| || | | | | ||| || ||||| |||||||| || || || |||||||||| |||||| | |||||||||||||||||||| |||||||| || || ||||||||
---------gtaaatgtttttttcttctttttgatgtcgcttg-----aggtttctgacgcttggttttctttagTGCTTAGAGGAAGCGCACCGACCGGTAGATTGTGAGACTGTTGCAAAGTGGATCCTCAAGAACAGCGCGGAGTCGGAAAACATGAACTG-----------
upper sequence: GRMZM2G431691_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ15174 (Selaginella moellendorffii), 3'ss of exon 6
gtgagtgttgaaactgattagttcatttttacataatcagcagtgagcaaaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGATTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCAGAGAATATGAACTGGTATAGAAGGA
| || || || ||| | ||| || | | | | | || || || || ||||| |||||||| || || || |||||||||| |||||| | |||||||||||||||||||| ||||||||||| || ||||||||
---------gtaaatgtttttttcttctttttgatgtcgcctggggtt---tctgacgcttggtt--ttctttagTGCTTAGAGGAAGCGCACCGACCGGTAGATTGTGAGACTGTTGCAAAGTGGATCCTCAAGAACAGCGCGGAGTCAGAAAACATGAACTG----------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcatttttacataatcagcagtgagcaaaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGATTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCAGAGAATATGAACTGGTATAGAAGGA
ccatatattttcttct CT-rich tract
atatattttcttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgttgaaactgattagttcatttttacataatcagcagtgagcaaaccatatattttcttcttttttcagTGCACCGAGGAAGCTCATCGTCCAGTAGATTGTGCCACTGTTTCGAAGTGGATCCTCAAGAACAGTGCGGAGTCAGAGAATATGAACTGGTATAGAAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC