Sequence
atgc intronic sequence ATGC exonic sequencegtaagaaattttgtttttttgcatgtgatgcttcttttttttccatgtatgaccacattttcgttgaatattcatgccaacccaagTTATTGGATGAGAAGCAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAGATGAAAGCATCAACGTTTATTTTCAGTGAAATCAGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G388234_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G19310.1 (Glycine max), 3'ss of exon 3
gtaagaaattttgtttttttgcatgtgatgcttcttttttttccatgtatgac-cacattttcgttgaatattcatgccaacccaagTTATTGGATGAGAAGCAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAGATGAAAGCATCAACGTTTATTTTCAGTGAAATCAGCC
||| | || | | || | | | | ||| |||| | | | || || || ||| | || ||| | ||||||||||||||||| |||||||| || |||||||| ||||||| ||| || ||||||||||||| || | ||| |||||||||||||
gtagttcaatt-atatcaacatatttactagtatggtagagcttatgcatgatataaagtaaattttcatcctcttgc-agCCTAAGCTGTTGGATGAGAAGCAGACAACTATCTATAAGAGGGCTGTTGACAAGAGTTATCACTTGAAGATGAAAGCGTCTAGGTTCATTTTCAGTGAAA------
upper sequence: GRMZM2G388234_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S264_34V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------gtaagaaattttgtt-tttttgcatgtgatgcttcttttttttccatgtatgaccacattttcgttgaatattcatgccaacccaagTTATTGGATGAGAAGCAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAGATGAAAGCATCAACGTTTATTTTCAGTGAAATCAGCC
||| | | ||| | |||| | | | | || | | | |||| | | | || |||||||| || ||||||||||||||||| | || || |||||||| |||||||| ||| ||||||| ||||| ||||||| || || ||||| ||||
taccttcatttaattataggtatagcagatagttatctttgaacttaactgaagtccttcaggaccatggcattaatgtttcatcactgttccgatgcagCCCAAGTTGTTAGATGAGAAGCAGACCACAGTGTATAAGAGGGCTGTGGACAAGAATTATCACCTGAAAATGAAGGCATCAAGATTCATCTTCAGCGAAA------
upper sequence: GRMZM2G388234_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ35350 (Selaginella moellendorffii), 3'ss of exon 5
gtaagaaattttgtttttttgcatgtgatgcttcttttttttccatgtatgaccacattttcgttgaatat-tcatgccaacccaagTTATTGGATGAGAAGCAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAGATGAAAGCATCAACGTTTATTTTCAGTGAAATCAGCC
| ||| | || | | | | | | | | | | | | || || || ||| | | || |||| ||||| || ||||||||||||| || ||||||| |||| | |||||||||| || || | |||||| ||||||||||
--------------------gtttgtagctttgacttatcgttgaaatctaaggaagtaagaaacgcaaacgttatcgcagCCGAAGCTTCTCGACGAGAGACAGACAACAGTCTACAAAAGGGCCGTGGACAAGAGCTATCATTTGAAGATGAAGGCCTCGAGGTTTATATTCAGTGAAA------
upper sequence: GRMZM2G388234_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ10608 (Selaginella moellendorffii), 3'ss of exon 5
gtaagaaattttgtttttttgcatgtgatgcttcttttttttccatgtatgaccacattttcgttgaatattc-atgccaacccaagTTATTGGATGAGAAGCAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAGATGAAAGCATCAACGTTTATTTTCAGTGAAATCAGCC
| || | || | | | | | || | | | | | | || || || ||| | | || |||| ||||| || ||||||||||||| || ||||||| |||| | |||||||||| || || | |||||| ||||||||||
--------------------gttcgtagctttgacttatcgttgaaatctaacgaagtaagaaacgcaaacgctatcacagCCGAAGCTTCTCGACGAGAGACAGACAACAGTCTACAAAAGGGCCGTGGACAAGAGCTATCATTTGAAGATGAAGGCCTCGAGGTTTATATTCAGTGAAA------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttttttttccatgtatgaccacattttcgttgaatattcatgccaacccaagTTATTGGATGAGAAGCAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAGATGAAAGCATCAACGTTTATTTTCAGTGAAATCAGCC
ttgaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaaattttgtttttttgcatgtgatgcttcttttttttccatgtatgaccacattttcgttgaatattcatgccaacccaagTTATTGGATGAGAAGCAGACCACTATCTACAAAAGGGCTGTAGACAAGAACTATAACCTGAAGATGAAAGCATCAACGTTTATTTTCAGTGAAATCAGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG