Sequence
atgc intronic sequence ATGC exonic sequence...tgcaataaaatttgtttgaatgtcttgtgctttgctgtagcttcttgtgtaagttatatcttgacgtcctttcataaaaaacggttttatctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 2
---tgcaataaaatttgtttgaatgtcttgtgctttgctgtagcttcttgtgtaa-gttatatcttgacgtcctttcataaaaaacggttttatctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
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atcagtagggttattcataagagagatcctaacctagcc-tagattaaagcatcttattttattaggatggccct-cattggttgca--tacatctcatttcagGGTTTCACTTATCCTGTTCGGAGTCGATTTCTAGAAGATATTCTCGAAATTACTGGGCACAGATTAACTCCTTACAATCAAATTGATGACTATGGTCAAG
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G18490.1 (Glycine max), 3'ss of exon 3
tgcaataaaatttgtttgaatgtcttgtgctttgctgtagcttcttgtgtaagttatatcttgacgtcctttcataaaaaacggttttatctc-aacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
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ctattttgtttttatttgatgttactgagcattactatt-ttggctctgaaagctaaaagtttcccattcttattgtttggggatgtgatggctaatatagGGTTTCACATACCCTGTTAGAACTCAATTTTTGGAGGATATTCTGGAAATGTCGGGCTACAGATTGACTCCTGACAATCAAATTGATGACTATGGTCAAG
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 8
---tgcaata--aaatttgtttgaatgtcttgtgctttgctgtagcttcttgtgtaagttatatcttgacgtcctttcataaaaaacggttttatctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
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tgttgctctggcaaatcgatatgcatttgcttacagataatatgaaagatatgataaact-tattttattttaattttctggggacctgtgcactttc----tagGGTTTTACATTTCCAGTTCGAGCACATTTTCTTGAGGACATTCTGGAAAGGACTGGATATCGATTGACACCGTATAATCAAATTGATGACTATGGTCAAG
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 8
tgcaataaaatttgtttgaatgtcttgtgctttgctgtagcttcttgtgtaagttatatcttgacgtcctttcataaaaaacggttttat-ctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
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tgttgctttgacaaatcgatatacatttgcttacaggtgatatgaaagatatgata-aacttattttcttttaattttttggggacctgtgcactttctagGGTTTTACATTTCCAGTTCGAGCACATTTTCTTGAGGATATTCTGGAAAGGACTGGATATCGGTTGACACCTTCTAATCAAATTGATGACTATGGTCAAG
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 8
--------------------------tgcaataaaatttgtttgaatgtcttgtgctttgctg----tagcttcttgtgtaagt-tatatcttgacgtcctttcataaaa-----aacggttttatctcaact-tagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
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gtaagtaagaaacatatttgtttatcctctttagaacatttcaagatatttaatcttttgctgagttcaatattccttggatctatatgctctgattaaccccagtgaaactactaatattgtcttcttcactatagGGATTTACATATCCAGTTCGTAGTCATTTCCTAGAGGATATTCTGGAGATGACCCGGTACAGATTGACTCCATACAATCAAATTGATGATTATGGTCAAG
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 7
--tgcaataaaattt-gtttgaatgtcttgtgctttgc-tgtagcttcttgtgtaagttatatcttgacgtcctttcataaaaaacggttttatctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
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tttagtttattattgagtacaaattttttatatataacatgttgttcattcatggtgtgatggactaactcttctctctcc----ctctactgttctactttagGGGTTTACGTACCCAGTACGAACTCATTTTCTGGAAAATATTCTGGAAATGACTGGATATAGATTGACTCCTTATAATCAAATTGATGATTATGGTCAAGMapped 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|31351858|gb|CD436215.1|CD436215EST: CTGAGCTATTCTCTTCATACTTTGGTGGAGCACCCATGATACATATACCT GGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATT
genomic: CTGAGCTATTCTCTTCATACTTTGGTGGAGCACCCATGATACATATACCTgtaagatatt ... ctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtaagttatatcttgacgtcctttcataaaaaacggttttatctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
tcttgac putative branch site (score: 3)
ttttatctc putative PPT
tttcataaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcaataaaatttgtttgaatgtcttgtgctttgctgtagcttcttgtgtaagttatatcttgacgtcctttcataaaaaacggttttatctcaacttagGGTTTTACATATCCTGTCCGGAGTCATTTTCTGGAAGATATTCTTGAAATTACTGGGCACTGGTTAACTCCATACAATCAAATTGATGACTATGGTCAAG
- -aataaaa
- - - - - - - -ttgaatg
- - - - - - - - - - - -cttgtgc
- - - - - - - - - - - - - - - tttgctg
- - - - - - - - - - - - - - - - - - - agcttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaaa