Sequence
atgc intronic sequence ATGC exonic sequencegtgatgatacatttgactttcctcttcttgatcaaatgcgatatgtctgagctaatgatgtgattgttctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAATGAATACATAAAAGCAGCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 21
lower sequence: LOC_Os05g07130.2 (Oryza sativa), 3'ss of exon 22
---------gtgatgatacatttgactttcctcttcttga---tcaaatgcgatat-gtctgagctaatgatgtgattgttctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAATGAATACATAAAAGCAGCTGG
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gtcacacatatgatcttctcttgttcattattgtgctagaaacctaagaaatacatagaccaaactaataccctt-taatcttcatgtagATGCCTCTCCACACCATAATTGAGATACAAATGGGAGTCACAGGTGTTGAGGAGAAGAGGTACAAGCTCATGGACTGAATATACATACATCTAGGCTCAG
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 23
------------------gtgatgatacatttgactttc-ctcttcttgatcaaatgcga-tatgtctgagcta---atgatgtgattgttctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAA-TGAAT-ACATAAAAGCAGCTGG
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atttttgtggggttcacattgtcagttggagaaatcttcacttttggtgaatgatgatgaatatgctgaagatatctaacatgagatttgtgatttccagGTTCCTCTTCATACGATTATTGAGATACAGATGGGAGTCACGGGTGTCCAAGAGAAAAGATATAAACTAATGGACTGAAATGAATTGAAGAAAAGTTTCT--
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 29
------------------gtgatgatacatttgactttc-ctcttcttgatcaaatgcga-tatgtctgagctaa-tgatgtgattgttctcatgt--agATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAATGAATACATAAAAGCAGCTGG
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atttttgtggggttcacattgtcagttggagaaatcttcacttttggtgaatgatgatgaatatgttgaagatatctaacgtgagatttgtgatttccagGTTCCTCTTCATACGATTATTGAGATACAGATGGGAGTCACGGGTGTCCAAGAGAAAAGATATAAACTAATGGACTGA----------------------
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 24
-----------------gtgatgatacatttgactttc-ctcttcttgatcaaatgcga-tatgtctgagctaa-tgatgtgattgttctcatgt--agATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAA-TGAATACATAAAAGCAGCTGG
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cttttgtggggttcatcgtgtcagttggagaaatcatgacttttgatgaatgatgatgaatatgctgaggatatctaacgtgagatttgtcatttccaggTTCCTCTTCATACGATTATTGAGATACAGATGGGAGTCACGGGTGTCCAAGAGAAAAGATATAAACTAATGGACTGAAATGAATTGAAGAAAAGTTCTCT
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 21
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
-------------------------------------gtgatgatacatttgactttcctct--tcttgatcaaatgcgatatgtctgagctaatgatgtgattgttctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAATGAATACATAAAAGCAGCTGG-
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gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataataacatattttggatgtttcaa--cagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACA-ACTATTACCACAA
upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 21
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 22
-------gtgatgatacatttgactttcctcttcttgatca------aatgcgatat-gtctgagctaa----tgatg----tgattgttctcatgt-agATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAATGAA-TACATAAAAGCAGCTGG
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ttaccacatcattttatgaataaattccttttctaggagaagaaaacaatccaaagttggccaagttacaccctgacaaacttaatgattcacttttcagGTACCGCTTCATACTATAATAGAGATACAAATGGGAGTTACTGGTGTCCAAGAGAAAAGATACAAGCTCATGGACTGACTTCGCTTCACAGAATCTTTTG-Mapped 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|32838571|gb|CD978249.1|CD978249EST: TGTATGCATATTTCGCGGACCGTCCTTTGAGAGAAGTTCCAGAGATAGAG ATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAA
genomic: TGTATGCATATTTCGCGGACCGTCCTTTGAGAGAAGTTCCAGAGATAGAGgtgatgatac ... tctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAA
EST:
gi|149062837|gb|EE157555.2|EE157555EST: TGTATGCATATTTCGCGGACCGTCCTTTGAGAGAAGTTCCAGAGATAGAG ATGCCACTACACCCCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAA
genomic: TGTATGCATATTTCGCGGACCGTCCTTTGAGAGAAGTTCCAGAGATAGAGgtgatgatac ... tctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcttgatcaaatgcgatatgtctgagctaatgatgtgattgttctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAATGAATACATAAAAGCAGCTGG
agctaat putative branch site (score: 3)
ttgttctc putative PPT
atcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgatacatttgactttcctcttcttgatcaaatgcgatatgtctgagctaatgatgtgattgttctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAATGAATACATAAAAGCAGCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG