Sequence
atgc intronic sequence ATGC exonic sequencegttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataatatattgtaataattgcatagtacgaagcatgcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCCCTTGGACACCCTCTGTGTATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g05050.1 (Oryza sativa), 3'ss of exon 2
gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataatatattgtaataattgcatagtacgaagcatgcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCCCTTGGACACCCTCTGTGTATAT
||| ||||| ||||| || ||||||| ||| || || || | | ||||| ||| |||||| ||||| | ||||| | |||||||| ||| || ||||||||||||||||| | ||||| || |||||||||||| | || |||||||||||||||| ||||||||||| |||||| | ||
gttggtttcactttctcacctggaatttgttttatgtaattatcggacagatagaatttattgtgataatggtatagtttggtgcatgcagGAGTGGTAGAAATCCTTTAGCCATAATTCTCGCACCTACTAGAGAACTTGCTAGACAAGTTGAGAAGGAATTTAAGGAATCTGCTCCTTTGGACTCTCTT---------
upper sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G14670.1 (Glycine max), 3'ss of exon 2
-------------------------------------------gttcgtttctctttcacatgtggaatt------cttttaatttatctaccagggagatataatatattgtaataattgcatagtacgaagcat-gcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCC---CTTGGACACCCTCTGTGTATAT
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gtactttatattagttacacttacatcttacttgaatctgtagtcttatttttctgcttgaaggaggattaggtaaccggtagtatatagtcttgatttgtgtctttaacta-aacaatttttttttattgattgttgcagACAAGGAAGAAATCCTTTGGCTTTGGTTTTGGCTCCAACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCACA------------
upper sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 3
--------------------------------------------gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataa-tatattgtaataattgcatagtacgaagcatgcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCC---CTTGGACACCCTCTGTGTATAT
| |||| ||| | || | ||| | | ||| || || | | | || || || | | | || ||| || || ||||||| || | | ||||| || || ||||||||||| |||||||||||||||||||| | || |||| || ||||| ||
gtactttatatttggttacacttacatcttacttgaatctgtagccttgtttttctgcttgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgattattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG------------
upper sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 2
gttcgtttctctttca-catgtggaattcttttaatttatctaccagggagatataatatattgtaataatt-gcatagtacgaagcatg-cagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCC---CTTGGACACCCTCTGTGTATAT
||| || | | | ||| || ||| |||| | | || | | || | || | || | || || ||| || |||||||| | | | |||||||| |||||||| |||||||| |||||||||||||| ||||| || |||||||| |||||| ||
gtttgtgtttactgagtcatttgaggttcagagaattatgttttctggttggtttactgatttttggggttttatgtggtttttgatgtgatagACGAGGGAGGAATCCGCTTTGTTTGGTTTTGGCACCGACAAGAGAGCTTGCTCGCCAGGTTGAGAAGGAGTTTAGGGAGTCTGCTCCGAGCTTGGATACT------------
upper sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------------------------------gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataatatattgtaataattgcatagtacgaagcatgcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCCC---TTGGACACCCTCTGTGTATAT
| ||| | | | ||| | | ||| | | || ||| || | ||||| || || || |||| ||| |||||||| || ||| | | ||||| ||||||||||||||||| ||||| || ||||||||||| | |||||||| ||| ||||| ||
gtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttctttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgcaatt-tttggtctttattat-tggcataatattttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA------------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggagatataatatattgtaataattgcatagtacgaagcatgcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCCCTTGGACACCCTCTGTGTATAT
atataatatattgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataatatattgtaataattgcatagtacgaagcatgcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCCCTTGGACACCCTCTGTGTATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA