Sequence
atgc intronic sequence ATGC exonic sequence...agcttttggggcatgcaaacgcatgtgaatcatgaatgatgtgctcaagaccgtgggtctgattttgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g25920.1 (Oryza sativa), 3'ss of exon 3
----agcttttggggcatgcaaacgcatgtgaatcatgaatgatgtgctcaagaccgtgggtc--tgattttgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
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tggtcgctttcactttgttctactac-tactaccgagcttttgagcg-tgatgttggtaagacgatgattttga--tctggaccgc-tggtgggtgctgc-tgcagGCTGATGGGAAAGGTGGCGTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCGCCAACTACTGGCAGAGCTCTTTT
upper sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G36190.1 (Glycine max), 3'ss of exon 3
--agcttttggggcatgcaaacgcatgtgaatcatgaatgatgtgctcaagaccgtgggtctgattttgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
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tttatttcagtgccatgttggagggagttacattttgcaaacacaatacaattcct--ctctgcactttactctgattgttgttgtttggttttgggaacagGTTGATGGGAAAGGTTACATCTGATAAGTGCCACAAATGGGTCTTCAAAGAGCCTACGGAATGTGAGCCTAATATCTCCAACTACTGGCAGAGTTCCTTT
upper sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA12G35490.2 (Glycine max), 3'ss of exon 2
agcttttggggcatgcaaacgcatgtgaa-----tcatgaatgatgt-gctcaagaccgtgggtctgattttgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
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----tgttcaatatccaataccatgtggagggactagggagttaagttacttatgcacatctgaacagtgctctgattgggtgggaattggattt--tgggaacagGTTGATGGGGAAAGTTGCATCTGATAAGTGCCACAAGTGGGTCTTTAAAGAGCCCACAGAATGTGAACCAAATATCTCCAACTACTGGCAGAGCTCCTTT
upper sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA12G27400.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------------------------------------agcttttggggcatgcaaacgcatgtgaatcatgaatgatgtgct-caagaccgtgggtctgattttgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
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gtgggtactgggtaggtgtttattcatgttgttattatttttttcccaagtttccttgtacctattttctgtttcattttaagtgttctttatttcagtaccatgttggagggagttacacatctttcaaacacaatgacaatttctctctgcactttactctgataggtgttgtttggttttgggaacagGTTGATGGGAAAGGTTACATCTGATAAGTGCCACAAATGGGTCTTTAAAGAGCCTACGGAATGTGAGCCTAATATCTCCAACTACTGGCAGAGCTCCTTT
upper sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G34980.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------------------------------------------agcttttggggcatgcaaacgcatgtgaatcatgaatgatgt--gctcaagaccgtgggtctgattttgggttt---tggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
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gtgggtactgggtaggtgttttgttatgttgtggttttgttctctctttctttctcagtcactttctttctctctctctctgtgaatcttgttcaatatccaattacatgtggagggactagggagttaagttacttatgcacatctgaactgtgctctgattgggtggaattggattt--tgggaacagGTTGATGGGGAAAGTTGCATCTGATAAGTGCCACAAGTGGGTCTTTAAAGAGCCCACAGAATGTGAACCAAATATCTCCAACTACTGGCAGAGCTCCTTT
upper sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G53900.2 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------agcttttggggcatgcaaacgcatgtgaatcatgaatgatgtgctcaagaccgtgggtct----gattttgggttttggacccccttctccttcctgca-------tgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
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gtgggtactgggtaggtgttatatataagtaattatggaccaaaagataattagattatataaacacaccctaatcacttaacttatgattaaagatataattatttacaacacaagttattatgatcttgtgatgttcatgtgatatatctgcagATTGATGGGTAAAGTTGCTTCTGATAAATGTCACAAGTGGGTTTTCAAAGAACCATCTGAATCTGAACCAAATCTTGCTAATTACTGGCAAAGTTCTTTT
upper sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------------------------------------------agcttttgg-ggcatgcaa-acgcatgtgaatcatgaatgatgtgctcaagaccgtgggtctgattt-tgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
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gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctacatgggctttgataggatgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTTMapped 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|149098917|gb|EE184930.2|EE184930EST: CCATCCAGCTCTACAACTACGGAGAAGGGTGGGTACTGGACTACGACTGG GCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGA
genomic: CCATCCAGCTCTACAACTACGGAGAAGGGTGGGTACTGGACTACGACTGGgtaggtgcag ... ctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagaccgtgggtctgattttgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
gtctgat putative branch site (score: 4)
ttttggacccccttct putative PPT
tgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcttttggggcatgcaaacgcatgtgaatcatgaatgatgtgctcaagaccgtgggtctgattttgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT