Sequence
atgc intronic sequence ATGC exonic sequencegtatgcaaaccttccagaaccaacatgcttgtcttaagttcatggctcaatgttcatgctctatttgatatggtctctaagaaaattggtcgattttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 5
gtatgcaaaccttccagaaccaacatgcttgtcttaagttcatggc-----------tcaatg---ttcatgc---tctatttg-atatggtctctaagaaaattggtcgattttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
||| || | | || || | | ||| | || ||||| |||||| || |||| | | | | || | ||||| || | | | || ||| |||||||| || ||||| ||||| ||||||||||||||||| ||||||||||||||||||||||||
gtaagctgaatctgcacaattcatgtatttgcataaatttcattattaattcttatttcaatgaaatttatgcaaatacgtgtacacctgatgtctaa-aagctggcccccattcttgttgcctgcagTCCGATGATGAGCGTGAGATGTGTGCAAGGACTATTTACTGCACAAACATTGACAAGAAG---------------------------------
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G32790.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatgcaaaccttccagaaccaacatgcttgtcttaagttcatggctcaatgttcatgctctatttgatatggtctctaagaaaattggtcgattttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
| || | | | | | || | | | | | || || ||| || | | | | ||| || ||||| |||| ||||| ||||| ||||||||||| ||||||||||| || ||||| |||||||||
---------------------------------gtgagattttcctctactatgcaaagtttctgatggttagcgactgaggaaaatgatttagtct-tgt-ctatgcagACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAG---------------------------------
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT4G10610.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatgcaaaccttccagaaccaacatgcttgtcttaagttcatggctcaatgttcatgctctatttgatatggtctctaagaaaattggtcgattttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
| | | || | || | | | || || | | ||| | | || || | || || ||| | ||| || ||| || |||| ||||| ||||| ||||||||||| |||||||||||||| |||||||||||||||
-----------gtaaggttttttcttgtgtttcatcacattctgactgcaaagttatggttttttagactcaagaggtttgatt-ttagtc--ctgtctttgttct-tagACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGCACTAACATTGACAAGAAG---------------------------------
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 6
gtatgcaaaccttccagaaccaacatgcttgtcttaagttcatggc--tcaatgttcatgctctatttgatatggtctctaagaaaattggtcgattttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
||| | | ||| || | | |||| | || | |||| | | |||||| | || | ||| |||| || ||| | |||||||| ||||||||||||||||| || |||||||| ||||| ||||| ||||| ||||||
acatgttgg--tgctaga---aatgggtatagcttagaaacgtgccgatcaaacattgtttactatttcttgtgcttgttaattaaatg-------ttatcgtgtcatccagTCTGAAGATGAACGTGAAATGTGCGCCAGGACTATTTACTGTACAAATATTGATAAGAAG---------------------------------
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S62_224V6.1 (Physcomitrella patens), 3'ss of exon 5
gtatgcaaaccttccagaaccaacatgcttgtcttaagttcatggctcaatgttcatgctctatttgatatggtctctaagaaaattggtcgattttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
| || || || | | | |||| || ||| | | | | | | | ||| ||| | | || || | | | |||||||| ||||| ||||||||||||||| |||| |||||||| ||||| ||||||||||||
----ggaattgtttcatacttgcaacgattgt--tagtgatatgccatagttcttgaatacggctcgg-atgaattctggc---tctaacttagttactctccattacagTCTGAAGATGAGCGTGAAATGTGTGCACGGACCATCTACTGTACAAATATTGACAAGAAG---------------------------------
upper sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S196_50V6.1 (Physcomitrella patens), 3'ss of exon 6
gtatgcaaaccttccagaaccaacatgcttgtcttaagttcatggctcaatgttcatgctctatttgatatggtctctaagaaaattggtcgatt-----ttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
|||| || | | ||| | | | | |||| | || || || |||| ||| || | |||| | | |||||||| || || ||||||||||||||| | || |||||||| ||||| ||||| ||||||
--------------aagaattttgataaat-ttttagtgacgtagttgtatgtgaacaatcctggaaattgcttcaataaggtggttgttctaacacaacttctctatgtttcagTCTGAAGACGAGCGTGAAATGTGTGCACGTACCATCTACTGTACAAATATTGATAAGAAG--------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgctctatttgatatggtctctaagaaaattggtcgattttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
atttgat putative branch site (score: 5)
ttttctgt putative PPT
tatttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcaaaccttccagaaccaacatgcttgtcttaagttcatggctcaatgttcatgctctatttgatatggtctctaagaaaattggtcgattttctgtgctctgcagTCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG