Sequence
atgc intronic sequence ATGC exonic sequencegtaagaaaccacactaataaaagttcaaaaatttagaataaaccgtgccacattattcctgagaaaaataacaaaatgtctatagtgacatgttcgggttatgctgtgagtagGTGGATCTGGTTTTCTTCGGCCATGTACACAACTACGAGAGGACTTGTGCGGTATACCAAGGCAATTGCAAAGGCATGCCAACGACGGACAAAAGTGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G138756_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g58640.1 (Oryza sativa), 3'ss of exon 10
gtaagaaaccacactaataaaagttcaaaaatttagaataaaccgtgccacattattcctgagaaaaataacaaaatgt----ctatagtgacatgttcgggttatgctgtgagtagGTGGATCTGGTTTTCTTCGGCCATGTACACAACTACGAGAGGACTTGTGCGGTATACCAAGGCAATTGCAAAGGCATGCCAACGACGGACAAAAGTGGAA
||| | | ||| || | | | | | | | ||| || | | | ||| |||||| ||||| | || | ||| |||| ||| |||| ||||| ||||||||||||||||||||||| || |||||||||||||| |||||||||||||||||||||| || |||| || |||
----------------gtaagatt---ggaatgcagctttagtcacacttaaatctaccttcataagttcatagaatactagactatagaaggatgttttgatt-tatgatgaacagGTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCGGTATACCAGGGCAATTGCAAAGGCATGCCAAAGAAGGACGCAAAAGGAG
upper sequence: GRMZM2G138756_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv13s0019g01250.t01 (Vitis vinifera), 3'ss of exon 10
gtaagaaaccacactaataaaagttcaaaaa--tttagaataaaccgtgccacattattcctgagaaaaataacaaaatgtctatagtgacatgtt--cgggttatgctgtgag-tagGTGGATCTGGTTTTCTTCGGCCATGTACACAACTACGAGAGGACTTGTGCGGTATACCAAGGCAATTGCAAAGGCATGCCAACGACGGACAAAAGTGGAA
| | ||||||||| || | | | | || | || | | || | || | | || | | | | ||| ||||| ||||||||| | | |||||||| |||||||||||||| |||||||| | || | | ||| || ||||| | || ||||| |
-----------------ttagggttcaaaaaacttcacattgagatctgtcgt-caggtcatagaataagttttgctcggttggtctctaaatactaacagttgggaacatgaactagGTTGATCTGGTTCTTGTTGGCCATGTCCACAACTACGAGAGAACTTGTGCTATTTATAACAATGAATGCCTAGCGATGCCTGGAAAAGATTGGAGTGGGA
upper sequence: GRMZM2G138756_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv13s0019g01250.t01 (Vitis vinifera), 3'ss of exon 23
gtaagaaaccacactaataaaagttcaaaaatttagaataaaccgtgccacattattcctgagaaaaataacaaaatgtctatagtgacatgttcgggttatgctgtgagtagGTGGATCTGGTTTTCTTCGGCCATGTACACAACTACGAGAGGACTTGTGCGGTATACCAAGGCAATTGCAAAGGCATGCCAACGACGGACAAAAGTGGAA
| | | | |||| | | ||| ||| | ||| | | | ||| || ||| | ||||| ||||||||| |||| || ||||| |||||||||||||| |||||||| | || | | |||||||| ||||| | || ||| || ||| |
-------------------------------------gtgagtatggacctattacgcttcagacttgtaatttgcactgaatactaa-aagttgggaacatg----aactagGTTGATCTGGTTCTCTTTGGTCATGTGCACAACTACGAGAGAACTTGTGCTATTTATGACCATGAATGCAAAGGGATGCCTAAGAAGGATGAAGATGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgagaaaaataacaaaatgtctatagtgacatgttcgggttatgctgtgagtagGTGGATCTGGTTTTCTTCGGCCATGTACACAACTACGAGAGGACTTGTGCGGTATACCAAGGCAATTGCAAAGGCATGCCAACGACGGACAAAAGTGGAA
aaataac putative branch site (score: 2)
aaaaataacaaaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaaaccacactaataaaagttcaaaaatttagaataaaccgtgccacattattcctgagaaaaataacaaaatgtctatagtgacatgttcgggttatgctgtgagtagGTGGATCTGGTTTTCTTCGGCCATGTACACAACTACGAGAGGACTTGTGCGGTATACCAAGGCAATTGCAAAGGCATGCCAACGACGGACAAAAGTGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA