Sequence
atgc intronic sequence ATGC exonic sequencegtgctaccaccagcctctgtgctgtacaaatcgtatgtagtaacatcaaatactccttcaaagcattgcgaaatataacgtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g52170.1 (Oryza sativa), 3'ss of exon 8
gtgctaccaccagcctctgtgctgtacaaatcgtatgtagtaacatcaaatactccttcaaagcattgcgaaatataac--gtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
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gtggtacctctagcctgagtattgtacaaatcacacgtggtaacatcaacca-tgcttgtaggcactgtgaaatttaacatgtctgaaacatcagGTAGCCCCATTGACTGCAGCTGTCATTGTTACCACCCCTCAGAAGCTTGCTTTCATCGATGTTGCAAAGGGAGTTAGAATGTTTTCCAAGCTGAAG
upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G31980.1 (Glycine max), 3'ss of exon 8
gtgctaccaccagcctctgtgctgtacaaatcgtatg------tagtaacatc-----aaatactccttcaaagcattgcgaaatataacgtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
||||| | | |||| | ||| | | | || || | | | ||| | | ||| | | | | |||| | |||||| ||||| || || ||||||||||| |||||||||||| | |||||||||||||| || ||||| ||||||| || ||||| |||
----cttaggaagcctgtatagtgtatatatcctttaattgtttgtcaatgtctttttagttgccaattctcattgattcgactttggttgcatatttatttagGTAGTTCCATTAACTGCTGCTGTAATTGTTACCACTCCTCAAAAGCTGTCGTTCATTGATGTTGCAAAAGGAGTTCGGATGTTTTCAAAACTTAAG
upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA07G09820.1 (Glycine max), 3'ss of exon 8
gtgctaccaccagcctctgtgctgtacaaatcgtatg------tagtaacatc-----aaatactccttcaaagcattgcgaaatataacgtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
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----cttaggaagcctgtatagtgtatatatcctttaattgtttgccaatgtctttttagttgccagttctcattgattcgactttggttgcatatttctttagGTAGTTCCATTAACTGCTGCTGTAATTGTTACCACTCCTCAAAAGCTGTCGTTCATTGATGTTGCAAAAGGAGTTCGGATGTTTTCAAAACTTAAG
upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT3G24430.1 (Arabidopsis thaliana), 3'ss of exon 7
----gtgctaccacc-agcctctgtgctgtacaaatcgtatgtagtaa----catcaaatactccttcaaagcattgcgaaatataacgtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
|| || || | || |||| ||| | || | | | || |||| || || | | || ||||| || |||||||| || |||||||| ||||| || ||||| ||||||||||||||| |||| || ||||||||||| || || |||||||||||||| ||||| |||
ttgcatgtaacaactgaataactttgcta-gcaactgaaatatgatgaatattattaaattcttctgttagatgctatgac-tataatgttcttggtatcagGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv11s0016g04250.t01 (Vitis vinifera), 3'ss of exon 7
-----gtgctaccaccagcctctgtg--ctgtacaaatcgtatgtagtaac--atcaaatactccttcaaagcattgcgaaatataacgtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
| | | | ||| | | |||| || | | | | | |||| | | || ||| | || | | | | |||||| | |||| | || || || || |||||||||||||| || ||||| || |||||||||||||| || ||||| | ||||| || ||||| |||
ctattttatgaaaatcttcctgcatagctcatctgaatcctaagaattccttagttcagtacttcctacaa--tttgagttggatgaatttcaacttttcagGTTGTTCCACTAACAGCTGCGGTTATTGTTACCACCCCACAGAAGCTAGCCTTCATTGATGTTGCAAAAGGAGTCCGTATGTTTTCAAAACTTAAG
upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S414_7V6.1 (Physcomitrella patens), 3'ss of exon 8
---------------------------------------------------------------------------------gtgctacca-ccagcctctgtgctgta--caaatcgt--atgtagtaacatcaaatac---tccttcaaa-gcattgcgaaatataacg-tctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
|| | | | | | | |||| || | | | ||| | | ||| | |||| | | ||| | | | | | ||| |||||||| || ||||| ||||| || |||||||| || ||||| ||| |||| ||||| ||||| ||||||||||| | |||||||| ||||| |||
gttgtcttcaatataacttgttgctagggtgtgtccctcaggatcttagtgaaatgataatgtagggtaaaatggcaaactatggttcgaattggttagtctattgtaagcagactttcaactaagttgtttgacatatatttatttcacatggatttctctctcttatgctctcgtcgttcagGTGGTGCCGTTGACAGCAGCCGTCATTGTTACAACACCTCAGAAGTTGGCATTCATAGATGTGGCCAAGGGAGTGCGCATGTTCTCCAAACTTAAGMapped 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|32921765|gb|CF026577.1|CF026577EST: AGGCGACATACACTTAACACTCTGTCAG GTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCT
genomic: AGGCGACATACACTTAACACTCTGTCAGgtgctaccac ... gaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCT
EST:
gi|32920197|gb|CF025009.1|CF025009EST: TCATCGATATGCCTCCTGGAACAGGCGACATACACTTAACACTCTGTCAG GTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCT
genomic: TCATCGATATGCCTCCTGGAACAGGCGACATACACTTAACACTCTGTCAGgtgctaccac ... gaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaacatcaaatactccttcaaagcattgcgaaatataacgtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
aaatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctaccaccagcctctgtgctgtacaaatcgtatgtagtaacatcaaatactccttcaaagcattgcgaaatataacgtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG