Sequence
atgc intronic sequence ATGC exonic sequencegtaaatcttgtttgctgtgattaaatccttgttttggtgctcttcctttgagaactaaacattatcttgtgtattctgcagTAACCGTATACCTGAAGCTGCATTACTGGCGCGTTCATATCTTCCTAGCAAAGTACCAGAGATAGTGGCAATTTGGAGAGACGACCTGAGTAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 20
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 3'ss of exon 20
------gtaaatcttgtttgctgtgattaaatccttgttttggtgctcttcctttgagaactaaacattatcttgtgtattctgcagTAACCGTATACCTGAAGCTGCATTACTGGCGCGTTCATATCTTCCTAGCAAAGTACCAGAGATAGTGGCAATTTGGAGAGACGACCTGAGTAAA
||| ||| |||||||||| || || ||| || | || ||| | | |||||| | |||| |||||| | ||| || ||||||||||||||||| ||| |||| ||||| |||||||| |||||||| | |||||||| ||||| |||||| | ||||| ||||||
gtacatgtacatcctgtttgctgttatgaactccccattgtagtaaatcatttttcaaagctaaacctcatct-atgtattatacagCAATCGTATACCTGAAGCTGCGTTAATGGCACGTTCTTATCTTCCCAGCAAAGTTTCTGAGATAGTAGCAATATGGAGAAATGACCTCAGTAAA
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 20
lower sequence: LOC_Os06g05180.4 (Oryza sativa), 3'ss of exon 4
------gtaaatcttgtttgctgtgattaaatccttgttttggtgctcttcctttgagaactaaacattatcttgtgtattctgcagTAACCGTATACCTGAAGCTGCATTACTGGCGCGTTCATATCTTCCTAGCAAAGTACCAGAGATAGTGGCAATTTGGAGAGACGACCTGAGTAAA------
||| ||| |||||||||| || || ||| || | || ||| | | |||||| | |||| |||||| | ||| || ||||||||||||||||| ||| |||| ||||| |||||||| |||||||| | |||||||| ||||| |||||| | ||||| ||||||
gtacatgtacatcctgtttgctgttatgaactccccattgtagtaaatcatttttcaaagctaaacctcatct-atgtattatacagCAATCGTATACCTGAAGCTGCGTTAATGGCACGTTCTTATCTTCCCAGCAAAGTTTCTGAGATAGTAGCAATATGGAGAAATGACCTCAGTAAAGTAATT
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 20
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 20
----------------------------------------------------------------------------------gtaaatcttgtttgctgtgattaaatccttgttttggtgctcttcctttgagaactaaacattatcttgtgtattctgcagTAACCGTATACCTGAAGCTGCATTACTGGCGCGTTCATATCTTCCTAGCAAAGTACCAGAGATAGTGGCAATTTGGAGAGACGACCTGAGTAAA
| ||| | || | || | || | | | | | | ||| | || || | || || | |||||||| || |||||||||||||| ||| |||| || || || ||||| ||||| || ||||||||| | | ||||||||| | ||||| | ||
gtaatcattttccttaccatataaccatagaaaatcaactgctgatactaatttattacacatttacttatttcatttaacagacaatatggtggtagtttatatgacccaggaagttgagat-tgagtttactgattagactctgatatg-gtctgttgcagTAATCGGATACCTGAAGCTGCTTTAATGGCACGATCTTACCTTCCAAGCAAGGTTCCAGAGATAATCACGATTTGGAGAAATGACCTCAACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttgttttggtgctcttcctttgagaactaaacattatcttgtgtattctgcagTAACCGTATACCTGAAGCTGCATTACTGGCGCGTTCATATCTTCCTAGCAAAGTACCAGAGATAGTGGCAATTTGGAGAGACGACCTGAGTAAA
aactaaa putative branch site (score: 2)
taaacattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatcttgtttgctgtgattaaatccttgttttggtgctcttcctttgagaactaaacattatcttgtgtattctgcagTAACCGTATACCTGAAGCTGCATTACTGGCGCGTTCATATCTTCCTAGCAAAGTACCAGAGATAGTGGCAATTTGGAGAGACGACCTGAGTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA