Sequence
atgc intronic sequence ATGC exonic sequence...atgtagaaaaatctccatatgattgttttgctttgtctacttcatattttgttcatgtgtgttgcttgtgtggactgaaacagcaattatgaaactgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G023020_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g32670.1 (Oryza sativa), 3'ss of exon 1
atgtagaaaaatctc---catatgattgttttgctttgtc-tacttcatattttgttcatgtgtgttgcttgtgtgg--actgaaacagcaattatgaaactgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
|| | ||| || | | | | | ||| | | || || ||||| | | | |||||| || || || ||||| | ||| |||||||||||| || |||||| | ||||| ||||||||||| ||||||||||||||||| |||||| | ||||| |||||||||||||||||||||| ||||||
------aagagtcttagagatgggttcatgcttcgttgctgtgaaacttaattgtttcatatttagcgattgtgttatttctaaaccatcaattgttaaattgtagGGAGTGCCGGCGATGTGCTCGAAGACAATCCTGTGGGGAGGTTGAAGGTCTTCATCTATGACCTCCCAAGAAAGTACAACAAGAAGATGGTCAACAAGGA
upper sequence: GRMZM2G023020_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA06G17140.1 (Glycine max), 3'ss of exon 1
atgtagaaaaatctccatatgattgttttgctttgtctacttcatattttgttcatgtgtgttgcttgtgtggactgaaacagcaattatgaaac----tgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
|||| | ||| | | | || | | ||||| | | | | | | | ||| | | | | ||| |||||| |||||||||||||| ||||||||| |||| ||||| ||||||||||| || ||||||| | ||||| || || || ||||| || | |||||
----------gtctcta---aattctgtggtttatttcaaaatatattatagttaaataaaaaaat-gagactactaagcatgttgtggttgaaccaaatgtagGTAGTGCTGGTGATGTATTAGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGCAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: GRMZM2G023020_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G33420.1 (Glycine max), 3'ss of exon 1
---atgtagaaaaatctccatatgattgttttgctttgtctacttcatattttgt-tcatgtgtgttgcttg-tgtggactgaaacagcaattatgaaactgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
| | || ||| | || | | ||| ||| || |||| | || ||| ||| || || | ||| | | || ||| |||||||||||||| || |||||| |||| ||||| ||||||||||| || ||||||| | ||||| || || || ||||| || | |||||
cttacattagcaattctatttctggagatacattgtagtcaactacactttttaaattctgcgtgaggctaaatgcatgttgtggttg-aatca----attgcagGTAGTGCTGGTGATGTATTGGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGTAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: GRMZM2G023020_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA04G37920.1 (Glycine max), 3'ss of exon 1
-atgtagaaaaatctccatatgat-tgttttgctttgtc-tacttcatattttgttcatgtgtgttgcttgtgtggactgaaacagcaattatgaaactgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
| | || |||| | || | || ||| || || | ||| || | | || || | | | || | | | || |||||| |||||||||||||||||||||||| |||| ||||| ||||||||||| || ||||||| | ||||| || || || ||||| || | |||||
gtcaaatacaagtctctaaattctgtgatttatttcaaaatatattatagttaaataaaaaatgacactactaagca-tgttctggt--tgaaccaaatgtagGTAGTGCTGGTGATGTGTTAGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGCAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: GRMZM2G023020_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT5G61840.1 (Arabidopsis thaliana), 3'ss of exon 1
atgtagaaaaatctccatatgattgtt-ttgctttgtctacttcatattttgttc--atgtgtgttgcttgtgtggactgaaacagcaattatgaaac-tgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
|| | |||| ||| ||| | || || || || || ||||| | ||||| | || | | | |||| ||||||||||||||||| |||||| |||| ||||| || |||| ||||| ||||||| | ||||| || |||||||||||||| | |||||
----agcattatctttcaggttctgtgattgagctacatagttaatccttgcttatgatgtgaactttaagtgtgtatctgtttttttcttctctgatgtttagGTAGTGCTGGTGATGTGTTGGAAGATGATCCCGTGGGAAGACTGAAAGTCTTTGTTTATGAGCTTCCAAGTAAATACAACAAGAAGATACTTCAGAAGGA
upper sequence: GRMZM2G023020_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv17s0000g00120.t01 (Vitis vinifera), 3'ss of exon 1
--atgtagaaaaatctcc-----atatgattgttttgctttgtctacttcatattttgttcatgtgtgttgcttgtgtggactgaaacagcaattatgaaactgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
| |||||||| | | ||| | | |||| ||| | || || | | || | || ||| | |||||| || |||||||| || || ||||| ||||| ||||| |||||||| || || ||||||| | ||||| || |||||||||||||| | |||||
tgtcctttaaaaatctgctagcagcaaaattttcctaacctgtcaact--gaacttaaaaaattaggatctctaaccacgccttgggttgcacct-----catgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgttcatgtgtgttgcttgtgtggactgaaacagcaattatgaaactgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
aattatgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtagaaaaatctccatatgattgttttgctttgtctacttcatattttgttcatgtgtgttgcttgtgtggactgaaacagcaattatgaaactgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - agaaaaa
- - - - - - - - - atgattg
- - - - - - - - - - - - -ttttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacagca