Sequence
atgc intronic sequence ATGC exonic sequence...gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g49690.1 (Oryza sativa), 3'ss of exon 8
----------------------gactaaaagacattgttgttgt--tgttgttgcattt-ttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
| | | | | | |||| | ||| |||| || ||| | | | |||||| || | || ||| | || ||| ||||||||||||||| || ||||||||||||||||||||||| ||||| |||||||| |||||||| ||||| |||
gtaagtttctgttcacatgtcagtccagataatcatagcattgtactaagcttgtatttcttttttcaatactgttatattga--tgctcacataccctgcaataccttt--------tttccagGTGTGGTCCGCTCCTAATTATTGCTACAGATGTGGAAATGTTGCTTCTATACTAAGCTTCAGTGAGACAATG----------------------------
upper sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA10G43480.1 (Glycine max), 3'ss of exon 8
------gactaaaagacattgttgttgttgttgttgcattttta--tttgagtgtgatcatattggattgttat-gatgccccatagtaacttcctttttcc---tttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
| | | ||| | | || ||| | | | ||| | | || || |||| | ||| ||| | || | |||| ||| ||| ||||| ||||||||||||||||| || ||| ||||||| ||||| |||||||| | || ||| |||| || |||
gtatgttttttatatgaattacaataatcatt-ttgtaccctaaagttttaaaat-ataattttgggcttgtatagatatgaagttgtcaattcccctttgaaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG----------------------------
upper sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA20G23310.1 (Glycine max), 3'ss of exon 8
------gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcc---tttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
|| ||| ||| | || || | | |||| || || ||||| | ||| | ||| | |||| ||| ||| ||||| ||||||||||||||||| || ||| ||||||| ||||| |||||||| | || ||| |||| || |||
gtatgtttcttaaatgaattacaataattcttttgttccctaaatttttaaaatataattttggactcgtata--gatatgaagtcaattcccctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG----------------------------
upper sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 8
-----------gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
| || |||| || || | | | ||||||| | | | || |||| | || ||| | | | | || ||| ||||| ||||||||||||||||| || ||| ||||||| ||||| |||||||| | || ||| |||| || |||
gtatgtttcttatatgaattacataatttttctgttccctaaattttta---aaatataatt---ttgggctcttg-gatattaagtgat--cgcctttggaaatttgcagGTATGGTCTGCACCTAATTACTGTTACCGATGTGGAAATGTAGCTTCTATTCTGAGTTTCAATGAAAATATG----------------------------
upper sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT3G19980.1 (Arabidopsis thaliana), 3'ss of exon 8
gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
|| | || | | || | || ||| ||| | | ||| | | | | ||| || |||| | | |||| ||||||||||||||||| || ||| | ||||| |||||||||||||| || || ||| |||| || |||
------gtgagtgtcctgcttctaatgaattgatattttttattagtgggcgttttgaaactctgct-tagtgattgttaattttgttttgtttgtgaagGTATGGTCTGCACCTAATTACTGTTACCGCTGTGGGAATGTCGCTTCTATATTGAGTTTCAATGACAACATG----------------------------
upper sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G50370.1 (Arabidopsis thaliana), 3'ss of exon 8
gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
|| | ||| | | || | |||| | || | ||| | | | ||||| | | ||| ||||| | | ||||||||||||| |||||||| |||||| | ||||| ||||| |||||||| || || ||| |||| || |||
---gtaagtgccttgct----tccttatgatcattttggatagttggaagtataatctgct-tggtgatgtttcttct---ctttattttttttgtaaagGTGTGGTCTGCGCCTAATTACTGCTACCGTTGTGGGAATGTGGCTTCTATATTGAGTTTCAATGACAACATG----------------------------
upper sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
lower sequence: PP1S207_36V6.1 (Physcomitrella patens), 3'ss of exon 8
-----gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
| | ||| |||||| ||||||||| | | || | | || ||| || | || |||| || || || ||||||||||| || || || ||||||||||||||||| ||||| ||||| |||||||||||| | || || |||
gtgtcacattggaaacagcaacgttgtttcaacattatttttatt--attctgctttaaaacaatctgactgaaacctc---gtgacttgtttcatctgtttcagGTGTGGTCCGCTCCAAACTATTGCTACAGATGTGGAAATGTTGCTTCAATCTTAAGCTTCAACGAAAATATG----------------------------
upper sequence: GRMZM2G055905_T02 (Zea mays), 3'ss of exon 8
lower sequence: PP1S31_220V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------------------------------------------------------------------------------gactaaaagacattgttgttgttgttgttgcat----ttttatttgagtgtgatc-atattggattgttatgatgccccatagta----acttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
| | || ||||| ||| | | | | | || || || || | | |||| || ||| | ||| || || || |||||||||||||| |||||||||||||| |||||||| ||||| ||||| || ||||||||| |||| || |||
gtatgcaccgtgtttttgtatgttcatgatagcttcttgatatcagtttgaattgttgggcccaagtgttttcttggattgggatctagtcgtccaagctgtgcccatgttggggtttctttaaaaagcatcagatttgtatggtctatctctgtttgtgatttctgagtatattgtgatgctttattgatctgtttcagGTGTGGTCTGCTCCTAATTATTGCTATAGATGTGGAAATGTTGCTTCGATATTAAGCTTCAATGAAAATATG----------------------------Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|161591175|gb|EY959386.1|EY959386EST: TGGTCCAGGAAGGCTTAAAGTACATGTTCCAGGAGAAGGGCCTTGTCACT GTGTGGTCTGCACCTAATTATTGCTACAGATGTGG
genomic: TGGTCCAGGAAGGCTTAAAGTACATGTTCCAGGAGAAGGGCCTTGTCACTgtgagttctt ... tcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGG
EST:
gi|32856737|gb|CD996418.1|CD996418EST: TGGTCCAGGAAGGCTTAAAGTACATGTTCCAGGATAAGGGCCTTGGCACT GTGTGGTCTGGACCTAATTATTGCTACAGA
genomic: TGGTCCAGGAAGGCTTAAAGTACATGTTCCAGGAGAAGGGCCTTGTCACTgtgagttctt ... tcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGA
EST:
gi|211170203|gb|FL095738.1|FL095738EST: TGGTCCAGGAAGGCTTAAAGTACATGTTCCAGGAGAATGGCCTTGTCACT GTGTGGTCTGCACCTAATTATTGCTACAGA
genomic: TGGTCCAGGAAGGCTTAAAGTACATGTTCCAGGAGAAGGGCCTTGTCACTgtgagttctt ... tcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
tagtaac putative branch site (score: 1)
taacttcctttttcct CT-rich tract
attgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gactaaaagacattgttgttgttgttgttgcatttttatttgagtgtgatcatattggattgttatgatgccccatagtaacttcctttttcctttccagGTGTGGTCTGCACCTAATTATTGCTACAGATGTGGCAATGTCGCTTCTATCTTAAGCTTCGATGAGAAGATGGTATGTCAGTTCTTTTGTCTTCAAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG