Sequence
atgc intronic sequence ATGC exonic sequence...tcaaaattcagatgaaacgttgaagctgcgcatttttattgctatagcttgttttgtgataaatgctaatgaattgatcaatccttgtttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G132144_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA10G16090.1 (Glycine max), 3'ss of exon 2
tcaaaattcagatgaaacgttgaagctgcgcatttttattgctatagcttg--ttttgtgata--aatgctaatgaattgatcaatccttg--tttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
| | || || ||| | || || ||| ||||||| || | | || | | || | || | | | | ||||| ||||||| ||||| ||||| |||| || ||||||||||| |||||||||||||| |||||||| || |||||||| || ||||| ||||| | |
------ctgttttagtggttttaaaagaattattctacttttggaagtttgaattttgtggtatgagtcctgtctgactatgtaaacaatgattctgctgaaacagATTGGTCCTGCACAGATAGAAGCGTTGTACCAATATGCCAAATTCCAGTTTGAGTGTGGAAACTACTCTGGTGCTGCTGACTATCTTTATCAGTACAGAG
upper sequence: GRMZM2G132144_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G33770.1 (Glycine max), 3'ss of exon 2
--tcaaaattcagatgaaacgttgaagctgcgcatttttattgctatagcttgttttgtgataaatgctaatgaattgatcaatccttg--tttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
| || ||| | || || ||| | || | | ||| || || || | | | || || | | | | ||||| ||||||| ||||| ||||| |||| || ||| ||||||| |||||||||||||| |||||||| || |||||||| || ||||| || || | |
tgctgtattttagagg----ttttaaaagaatcatcctagttttgagaagttgaattttgtggtatttgagttcactgtgtaaatgaggattctgctgtaacagATTGGTCCTGCACAGATCGAAGCATTGTACCAATATTCCAAATTCCAGTTTGAGTGTGGAAACTACTCTGGTGCTGCTGACTATCTTTATCAATACAGAG
upper sequence: GRMZM2G132144_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT3G57290.1 (Arabidopsis thaliana), 3'ss of exon 2
-tcaaaattcagatga----aacgttgaagct-gcgcatttttatt--gctatagcttgttttgtgataaatgcta-atgaattgatcaatccttgtttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
| ||| ||||| ||| || | | | | | |||| | | | | || |||||| || | | ||| | |||| | | || ||||| ||||| ||||||||||| ||| |||| ||||| ||||| ||||||||||| ||||| ||||| || || ||||||||||| ||||||||||| |
gttgtgatttggatgattaagttgtttaattttgtgaaatgttatccagatttggttttgtttgtgtattgtggaacacaaatcttatatggcttggtgtcttat-cagATTGGTCCAGACCAGATTGAGGCTTTGTACCAGTACGCCAAGTTTCAGTTTGAATGTGGCAACTATTCTGGTGCTGCTGATTATCTTTACCAGTACAGGA
upper sequence: GRMZM2G132144_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv00s0252g00070.t01 (Vitis vinifera), 3'ss of exon 2
tcaaaattcagatgaaacgttgaagctgcgcatttttattgctatagcttgttttgtg-ataaatgctaatgaattg-atcaatccttgtttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
|| || | || ||| ||| || | | ||| || || || || || |||| ||| | || || | ||||| || | || ||||| || || | |||||||||||||||||||||||||| ||||| |||||||| || |||||||||||||| || ||||| | |
tcctgtttttgttgttgtattgttgctaa--tttgacagaattctaggtttttgggtctatttggcttacaaaattatatcccttttttcttttctgaccagATTGGCCAGGAGCAGATAGAGGCATTATATCAGTATGCCAAATTTCAGTTTGAATGTGGAAACTACTCTGGTGCTGCTGATTACCTGTATCAGTACAGGG
upper sequence: GRMZM2G132144_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S73_26V6.1 (Physcomitrella patens), 3'ss of exon 2
-tcaaaattcagatgaaacgttgaagctgcgcatttttat-tgctatagcttgttttgtgataaatgctaatgaattgatcaatccttgtttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
|| | | |||| | | || || || |||| ||| | | | | | || | | || || | || |||||||| |||| || ||||| ||||| || |||||||| || || |||||||||||||| ||||| ||||| || |||| ||||| || ||||||||
atcgaccaccttatgacatcgcatttccatgccttgccatctgctccgatatgtgactttggaggtctgactacatcgtatgaa--tttcttctctttgtagATCGGTTCTGATCAAATTGAGGCTCTTTACCAGTATGCGAAGTTCCAGTTTGAGTGTGGAAACTATTCAGGTGCCTCTGACTACCTCTATCAGTATCGCA
upper sequence: GRMZM2G132144_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S363_21V6.2 (Physcomitrella patens), 3'ss of exon 2
-tcaaaattcagatgaaacgttgaagctgcgcatttttattgctata-gcttgttttgtgataaatgctaatgaattgatcaatccttgtttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
| ||| | | | | || || || | | | || | |||| | | | | | || || || || |||||||| |||| || || || |||||||||||||||||||| || ||||||||||| || |||||||| || || | || ||||| || ||||||| |
attgtaatatgtagcatatcgcatttcaacgtcttgctacctccgtgtggatgccacattataagtctgacagtttcgtctaaattgtgattgtt--tgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTTGAGTGCGGAAACTACTCGGGTGCATCCGACTACCTGTATGAGTATCGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcttgttttgtgataaatgctaatgaattgatcaatccttgtttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
taatgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaaaattcagatgaaacgttgaagctgcgcatttttattgctatagcttgttttgtgataaatgctaatgaattgatcaatccttgtttaccaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTTGAGTGTGGTAACTACTCAGGGGCTGCTGATTACCTTTACCAGTATCGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - -gaagctg
- - - - - - - - - - - - - - - - - - tattgct
- - - - - - - - - - - - - - - - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctaatg
