Sequence
atgc intronic sequence ATGC exonic sequence...ttttggttatttctccatgtgttgtgctattattcccgaatgagttgaactgtttctcacctagtgaaaaaactattatctcactggattcttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G110185_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g09290.2 (Oryza sativa), 3'ss of exon 5
---------ttttggttatttctccatgtgttgtgctattattcccgaatgagttgaactgtttctcacctagtgaaaaaactattatctcactggattcttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
| ||| || | | || ||| ||| | | ||| ||| | || | | | | | || | | || ||||| | | | ||| |||||||| ||||||||||| |||||||| ||| | |||||||| ||||| || || |||||||||||||||||||| ||||| ||||||||||| |||
ttccacatatgttgtttgcat-tgcacttgt-gtgatgctgttcttgaagtaattatattatcaattggattgt------attgtt-tctcatcctgtgtatcatacagAGTTGATCGAAACAAGTACCAAATTCAAATTCCTTTGCCACCAAAGATTGATCCCAGCGTTACCATGATGACTGTGGAAGAAAAACCAGATGTGACTTAC
upper sequence: GRMZM2G110185_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G01810.1 (Glycine max), 3'ss of exon 5
--ttttggttatttctccatgtgttgtgctattattcccg--aatgagttgaactgtttct-cacctagtgaaaaaactattatctcactggattcttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
| | | | || || || | |||| || || |||| ||| || | || ||| | || | |||||| |||||| | ||||| || |||||||| || ||| | || || |||||||| |||||||| ||||||||||| || || || |||||||||||||| ||
gtatgtttccaataagtaatttgatgcaagaatatttatagaaagaagaggaaccctttgggcatgttgtctgcttgtaatttgaccttcattttatcattgcagGGTTGATAGAAACAAATATCAGATTCAGATTCCTTTGCCTCCGAAAATTGATCCAAGTGTAACCATGATGACGGTTGAAGAGAAGCCAGATGTGACATAT
upper sequence: GRMZM2G110185_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 5
-----ttttggttatttctccatg-tgttgtgctattattcccgaatgagttgaactgtttctcacctagtgaaaaaacta-ttatctcactggattc-------ttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
|| | | | || |||| |||| | ||| ||| | | || | | || || ||| |||| | | | || ||| |||||| | ||||| || ||||||||||| || || || |||||||||||||||||||||||||||||||| || || || ||||| |||||||| ||
gtatgttccaatcagtaacttttgatgttaaaatattccatgttga-gagaagaaggggtattctagtgttatgttgtctgcttgtctgactgaacttcattccatcatttcagGGTTGATAGAAACAAATATCAGATTCAAATTCCACTGCCTCCAAAAATTGACCCAAGTGTTACCATGATGACAGTTGAAGAGAAGCCTGATGTGACATAT
upper sequence: GRMZM2G110185_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 5
-----ttttggttatttctccatg-tgttgtgctattattcccgaatgagttgaactgtttctcacctagtgaaaaaacta-ttatctcactggattc-------ttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
|| | | | || |||| |||| | ||| ||| | | || | | || || ||| |||| | | | || ||| |||||| | ||||| || ||||||||||| || || || |||||||||||||| ||||||||||||||||| || || || ||||| |||||||| ||
gtatgttccaatcagtaacttttgatgttaaaatattccatgttga-gagaagaaggggtattctagtgttatgctgtctgcttgtctgactgaacttcattgcatcatttcagGGTTGATAGAAACAAATATCAGATTCAAATTCCACTGCCTCCAAAAATTGACCCTAGTGTTACCATGATGACAGTTGAAGAGAAGCCTGATGTGACATAT
upper sequence: GRMZM2G110185_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G05220.1 (Glycine max), 3'ss of exon 5
----------ttttggttatttctccatgtgttgtgctattattcccgaatgagttgaactgtttctcacctagtgaaaaaactattatctcact---ggattcttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
| || |||| | ||| | || || || ||||| | | | | | || | || | | || || | |||||| |||||| | || || || |||||||| || ||| | || ||||||||||| |||||||| |||||||||||||| || || ||||||||||| || ||
gtatgcctccaataagtaatttgatgctagaatgtataaccatag--aaagaagaggaactctatggc-cttgttgtatgcttgtttgtttgaccttcattttatcattgcagGGTTGATAGAAATAAATATCAGATTCAGATTCCTTTGCCTCCAAAAATTGATCCAAGTGTGACCATGATGACTGTTGAAGAGAAGCCAGATGTAACATAT
upper sequence: GRMZM2G110185_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0002g00170.t01 (Vitis vinifera), 3'ss of exon 5
ttttggttatttctccatgtgttgtgctattattcccgaatgagttgaactgtttctcacctagtgaaaaaactattatctcactggattcttg---ttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
|| | | ||||| | || ||| | || || || | || || || |||||| | || |||||| |||||||| || || || ||||||||||| || | || ||||| ||||| |||||||| ||||||||||| || || || || || |||||||| ||
-gatgcctttaaaggcatgtacttcctcataatttttg--tggtgaaaaaatttatttgtttaatgtgttcttgtttgtctcaccaacatgctgccattgcagGGTTGATCGAAATAAATATCAGATTCAAATTCCCTTGCCCCCAAAGATTGATCCAAGTGTAACCATGATGACAGTAGAAGAGAAACCGGATGTGACATAT
upper sequence: GRMZM2G110185_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S152_13V6.2 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------------------------------ttttggttatttctccatgt----gttgtgctattattcccgaatgagttgaactgtttctcacctagtgaaaaaactattatctcactggattcttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
| | ||| |||| ||| |||||| || | | || | | | | || || ||||| | | || | ||| |||| || || || ||||||||||| || || || || || ||||| || |||||||| ||||| || |||||||| || || |||||||||||||| ||||||
gtatgtcgtcctgatttttcgttttgtcatatgggtgcgctatttttgttaaattaggattttgatacatctctcaactatatctctttgttaacgttgtggtaactgttttagctaggtaaagtggatgtgcttctt-----aactttattagtt-ataatatacctgt-gcagGGTAGACCGAAACAAGTACCAAATCCAGATTCCGCTGCCACCTAAGATTGACCCGAGTGTCACTATGATGACAGTAGAAGAAAAGCCAGATGTTACGTAC
upper sequence: GRMZM2G110185_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S49_256V6.1 (Physcomitrella patens), 3'ss of exon 5
--------------------------------------------------------------------------------------ttttggttatttctccatgtgttgtgctattattcccgaatgagttga-actgtttctcacctagt-----gaaaaaactattatctcactggattcttgt-------tgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
| || | | | | ||| | || | | | || || || || | || || | | | ||| || | | | | | ||||| || ||| | |||||||| || || || || || | || || || |||||||| || ||||| |||||||| |||||||||||||||||||| || |||
gtacgttttcttaacttctcgttctactttatactcggttcctgagtgagctgtattgatcatgtgaagataggtctctagttgggcctcacttgtctggacgttcgttttactgcagtatcgaaggaaggagatgatgattaaaagctggtattttgttcgagatgttaactttttcggtcataatatacatgtgcagGGTAGATAGAAACAAGTATCAAATCCAGATTCCATTGCCTCCTAAGATTGACCCCAGCGTTACAATGATGACAGTGGAGGAAAAGCCAGATGTCACCTACMapped 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|5846988|gb|AW000067.1|AW000067EST: CTAATACGGATGATGCCAAATATGTTATAAATGTAAAACAAATTGCAAAG TGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTTCCACCAAAAATTGA
genomic: CTAATACGGATGATGCCAAATATGTTATAAATGTAAAACAAATTGCAAAGgtatgacatg ... cttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGA
EST:
gi|5296364|gb|AI783134.1|AI783134EST: CTAATACGGATGATGCCAAATATGTTATAAATGTAAAACAAATTGCAAAG TGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTTCCACCAAAAATTGA
genomic: CTAATACGGATGATGCCAAATATGTTATAAATGTAAAACAAATTGCAAAGgtatgacatg ... cttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaactgtttctcacctagtgaaaaaactattatctcactggattcttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
ttcttgtt CT-rich tract
tgaaaaaactattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttggttatttctccatgtgttgtgctattattcccgaatgagttgaactgtttctcacctagtgaaaaaactattatctcactggattcttgttgcagTGTTGATCGCAACAAGTACCAGATTCAAATCCCTCTCCCACCAAAAATTGACCCAAGTGTTACCATGATGACTGTGGAGGAAAAGCCAGATGTGACGTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG