Sequence
atgc intronic sequence ATGC exonic sequence...gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g36740.3 (Oryza sativa), 3'ss of exon 1
--gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
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tgattgaatctgttaa--ggattttttttttgttttactgtatttcttttgtacgtcatgtctatatttctactttttgatctacaagattttattgtgcagTACGCTCATAGAGAATGTGTGCAAAGATGGTGCAATGAGAAAGGAGACATAATCTGTGAAATCTGCCACGTG
upper sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G35750.2 (Glycine max), 3'ss of exon 1
gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaattttt-ttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
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-tttatgtggcatctttgttttttttttttttttcttttaatatgcttgcatttccattttgtgttaacgattggtgattttttggaaatttcatgaacagTATGCTCATAGAAAGTGCGTTCAGCGTTGGTGCAATGAGAAAGGAGACATAATTTGTGAGATATGTCATAAG
upper sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
lower sequence: AT1G14260.2 (Arabidopsis thaliana), 3'ss of exon 2
gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattg-----cataaatctgtttgctaatttttttataccacatttgtt-tgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
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--gtagttttttccttca--ttgtttcatgat-cactataggaacctatagttagttatcaagagaacatttgagtattgacttttaagttttacgttgtgatcagTATGCTCACAGAAAATGTGTTCAACGTTGGTGTAATGAAAAGGGAAACACTATATGCGAAATCTGTCATCAG
upper sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
lower sequence: AT3G47550.2 (Arabidopsis thaliana), 3'ss of exon 1
gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
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--------------gtaaacacgttggatctcattgt-tctttgttttttattggttaga-------gaaaattttcttattgagttttgatttatgcagTATGCTCACCGCAAGTGTGTTCAGCGTTGGTGTAATGAGAAAGGCGACATAACCTGTGAAATATGTCACCAG
upper sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
lower sequence: AT5G62460.1 (Arabidopsis thaliana), 3'ss of exon 2
--gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
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gtgataattttatcaatgaatctcattgttttatttgtttttgttggtatctttcgtttaaaacagttc-tcatcaatttggtat----tttgtgtctatagTATGCTCATCGTAAGTGTGTTCAACGTTGGTGTAATGAGAAAGGCGACACAACCTGTGAAATATGCCACAAG
upper sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv17s0000g06230.t01 (Vitis vinifera), 3'ss of exon 2
--gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttataccacatttgttt-gcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
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acacccacccactcacagacatgggaaaaatgtt-taatgtgttggtt--ctttggaattatttcctagactagtaccaaactgacacctctgtctcatccagTTTGCTCATAGGAAATGTGTTCAACGATGGTGCAATGAGAAAGGAGATGTAACTTGCGAGATCTGTCATCAG
upper sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv01s0026g02470.t01 (Vitis vinifera), 3'ss of exon 4
gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttat--accacat-ttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
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--tgtattgtcattatgagataaaatttagtactccttgatatttttctctctaactccat-tgtcagtcaaatttgttattgactgtatattttttttccagTATGCTCATAGGAAGTGTGTTCAACGATGGTGCAATGAGAAAGGAGACATAATTTGTGAGATCTGCCATCAGMapped 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|211209510|gb|FL044931.1|FL044931EST: ACCTCGCAAAGAACCTCGAGAGCCCCTGTGCTTGCAGCGGCAGCCTCAAG TATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATA
genomic: ACCTCGCAAAGAACCTCGAGAGCCCCTGTGCTTGCAGCGGCAGCCTCAAGgtgcgtgctg ... gtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagcattgcataaatctgtttgctaatttttttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
tgctaat putative branch site (score: 2)
tttgttt putative PPT
ataaatctgtttgcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - -tgcttac
- - - - - - - - - - - - - - -gccatcc
- - - - - - - - - - - - - - - - - - - - - - - - -cattgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgc