Sequence
atgc intronic sequence ATGC exonic sequencegttacatattttctctacatcaccttgttgaattggtgggtcttgcttttgactgcaatacattaccgattgcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G116840_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g47770.1 (Oryza sativa), 3'ss of exon 5
gttacatattttctctacatcacct--tgttgaattggtgggtcttgcttttgactgcaatacattaccgat---------tgcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
|||| | | ||| || || || |||| || ||| | || ||| | |||| | || || | |||||||||| || || || |||||||||||||||| |||||| |||||||||||||| ||||| ||||||||||||||||| |||||||||| ||||||| ||
gttatagagcttcactgtgtcctctcctgtttaaatgg-agatcatgcatctgaccatattatatgtttattatatgttggtgcagCAACGTCCTGCCGACAATGATCGCTATGTCAGGAACTGCCGCAATGGGAGGTCGCCGAAGGAGACCAGGTGGTGGTTTCATGATGACAAAGTGTGATTGG
upper sequence: GRMZM2G116840_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA01G37480.1 (Glycine max), 3'ss of exon 5
---------------gttacatattttctctacatcacc--ttgttgaattggtgggtcttgcttttgactg-caatacattacc-gatt------gcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
| | ||| || ||| | | | ||||| | ||| | | || |||| | |||| |||||||||||| | |||||||| |||||||| |||||||| | ||||| || || || || ||||| |||||||||||||||||||||| || | ||
attatttaagattctactggtgaatttaggtaggtcattgatccatcatcaaatgggtgtcattttggcttaataactcatttcttgatttctttggcagCAACGCCCTGAAGATAATGACCGCTATGTAAAGAACTGCAGAAATGGCAGATCACCCAAGGAGACAAGGTGGTGGTTCCATGATGACAAAGTATAATAAA
upper sequence: GRMZM2G116840_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G07810.1 (Glycine max), 3'ss of exon 5
-----------------------gttacatattttctctacatcaccttgttgaattggtgggtcttgcttttgactgcaatacattaccgatt--gcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
| | || | |||| | || | |||| | | ||| ||| || |||||||||||| | |||||||| |||||||| |||||||| | ||||| || || || || ||||| |||||||||||||||||||||| || | ||
tggttattatttaagattcttcaggtgaatttaggtaggtcatcgatccatcatgggtgtcatttcggcttaataactctttactttatttctttggcagCAACGCCCTGAAGATAATGACCGCTATGTAAAGAACTGCAGAAATGGCAGATCACCCAAGGAGACAAGGTGGTGGTTCCATGATGACAAAGTATAATAAT
upper sequence: GRMZM2G116840_T03 (Zea mays), 3'ss of exon 6
lower sequence: AT5G42990.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------gttacatattttctctacatcaccttgttgaattggtgggtcttgct-------tttgactgcaatacattaccgattgca------gCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
| ||| || | | |||| | || | | | | ||| | | ||| ||| |||| || ||||||||| ||||||| ||||| ||||| |||||||| || ||||||||||| |||||||| ||||||||||||||||| |||| || | ||
gtttctacatttgatctctcacactttgtattgttgtcacaaattcaaactttttgaccctgccacacaactcttactatgtcttattgtcgatgacaatatcagCAACGCCCGACTGATAACGATCGATATGTGAAGAACTGCAAGAACGGGAGGTCTCCTAAAGAGACAAGGTGGTGGTTCCATGACGACAAGGTTTAATGAT
upper sequence: GRMZM2G116840_T03 (Zea mays), 3'ss of exon 6
lower sequence: AT1G45050.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------gttacatatttt-ctctacatcaccttgt-tgaattggtgggtcttgcttttgactgcaatacattaccgattgcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
||||| | | || | || | || |||| | | | | | | | | | | ||||||||||||||| || ||||| ||||| ||||| ||||||||| |||||||||||||| || ||||| ||||||||||||||||| |||| || ||||
gttctttcttcttcttcgtgtttccctattgacaagttacccaaagtactgtgaattatgaggtctgaaactaagaatatcaatgtgttttttattccgc--cttattgcagCAACGCCCTGCGGATAACGATCGTTATGTGAAGAACTGTAAGAATGGGAGGTCTCCTAAGGAGACGAGGTGGTGGTTCCATGACGACAAGGTTTGATGCA
upper sequence: GRMZM2G116840_T03 (Zea mays), 3'ss of exon 6
lower sequence: Vv18s0001g13180.t01 (Vitis vinifera), 3'ss of exon 5
------------------------------------------------------gttacatattttctctacatcaccttgttgaattg-gtgggtcttgcttttgactgcaatacattaccgattgcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
|| ||| | || | | || | || | | | || || ||| | | |||| ||||||||||||| || |||||||| |||||||| || || ||||| ||||| || ||||| || ||||| || ||||||||||||||||| | |||| || |
gtttggttcaaattgtcaaagttttaagttttttaaacccctcctttcttcttaattttgcttttatctttttccagcctattttagtgtgagagcattactcatgagtttttt-cattg-----tgcagCAACGCCCTGCAGATAATGACCGCTATGTGAAAAATTGTCGGAATGGCAGATCTCCCAAGGAGACTAGATGGTGGTTCCATGATGATAAAGTGTAATAGAMapped 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|88749741|gb|DY533882.1|DY533882EST: GTTCTATCTGTATCAGCATATTATTTATGCTGTCCAGCTCGCCAGAAAAG CAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGG
genomic: GTTCTATCTGTATCAGCATATTATCTATGCTGTCCAGCTCGCCAGAAAAGgttacatatt ... ccgattgcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caccttgttgaattggtgggtcttgcttttgactgcaatacattaccgattgcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
ttttgac putative branch site (score: 3)
aatacatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttacatattttctctacatcaccttgttgaattggtgggtcttgcttttgactgcaatacattaccgattgcagCAACGCCCAGCTGATAATGATCGCTATGTCAAGAACTGTCGCAATGGGAGGTCTCCGAAAGAGACCAGGTGGTGGTTCCATGATGACACCGTGTGATCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG