Sequence
atgc intronic sequence ATGC exonic sequence...acgcgtagttgctgcgtacatgcagatgcacgatgataaaagcaaacgcacaagtgatgcttaaatacagcgtctgattttctcggcgtgatctgtgcagTCGGGTACGGACCGTACCTGGGGAGGAAACTGGATCCGGAGCCCGGCCGGTGCCGGCGAACGGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCCGCCCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G034876_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g47280.2 (Oryza sativa), 3'ss of exon 2
--acgcgtagttgctgcgtacatgcagatgcacgatga--taaaagcaaacgcacaagtgatgcttaaatacagcgtct--gattttctcggcgtgatctgtgcagTCGGGTACGGACCGTACCTGGGGAGGAAACTGGATCCGGAGCCCGGCCGGTGCCGGCGAACGGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCCGCCCC
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aaatattcaaatgccattctattaggaactcaaaatgcattaccaacaaatgcattcttg-tgtgtaa-cacggttgctacgatgtgcctgtt----tttgtacagTTGGATATGGTCCGTACTTCGGCAAGAAGCTGGACCCAGAGCCAGGGCGGTGCCGGCGTACGGACGGCAAGAAATGGCGGTGCTCGAAGGAGGCCGCGCC
upper sequence: GRMZM2G034876_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ24024 (Selaginella moellendorffii), 3'ss of exon 2
--------acgcgtagttgctgcgtacatgcagatgcacgatgataaaagcaaacgcacaagtga--tgcttaaatacagcgtctgattttctcggcgtgatc-tgtgcagTCGGGTACGGA---CCGTACCTGGG------GAGGAAACTGGATCCGGAGCCCGGCCGGTGCCGGCGAACGGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCCGCCCC
|| || || | | || ||| ||| | || ||| | | ||| | |||| | || |||||||| || | ||| |||| || || || | || |||||||| || |||||||| ||||| ||||||||||||||| ||||||||| |||
gtgagtgcctgctgcctttctcccttcacttcactgctcgactgcctcctcgctgttctcagcaccttgcaccactggcaactctaaagatctccttgctttcctgtgcagTGGGCTGGGGAAACTTCCACCTTGGAATTCCGAACAATCCCGACCCGGAGCCTGGTCGGTGCCGACGAACAGACGGCAAGAAGTGGAGGTGCTCCAGGGA---------
upper sequence: GRMZM2G034876_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ24588 (Selaginella moellendorffii), 3'ss of exon 2
--------acgcgtagttgctgcgtacatgcagatgcacgatgataaaagcaaacgcacaagtga--tgcttaaatacagcgtctgattttctcggcgtgatc-tgtgcagTCGGGTACGGA---CCGTACCTGGG------GAGGAAACTGGATCCGGAGCCCGGCCGGTGCCGGCGAACGGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCCGCCCC
|| || || | | || ||| ||| | || ||| | | ||| | |||| | || |||||||| || | ||| |||| || || || | || |||||||| || |||||||| ||||| ||||||||||||||| ||||||||| |||
gtgagtgcctgctgcctttctcccttcacttcactgctcgactgcctcctcgccgttctcagcaccttgcaccactggcaactctaaagatctccttgctttcctgtgcagTGGGCTGGGGAAACTTTCACCTTGGAATTCCGAACAATCCCGACCCGGAGCCTGGTCGGTGCCGACGAACAGACGGCAAGAAGTGGAGGTGCTCCAGGGA--------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acgcacaagtgatgcttaaatacagcgtctgattttctcggcgtgatctgtgcagTCGGGTACGGACCGTACCTGGGGAGGAAACTGGATCCGGAGCCCGGCCGGTGCCGGCGAACGGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCCGCCCC
gtctgat putative branch site (score: 4)
ttaaataca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgcgtagttgctgcgtacatgcagatgcacgatgataaaagcaaacgcacaagtgatgcttaaatacagcgtctgattttctcggcgtgatctgtgcagTCGGGTACGGACCGTACCTGGGGAGGAAACTGGATCCGGAGCCCGGCCGGTGCCGGCGAACGGACGGCAAGAAGTGGCGGTGCTCCAAGGAGGCCGCCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG