Sequence
atgc intronic sequence ATGC exonic sequence...tacttgaacagtgtgtacatagtgtggagtttgatgtatcagcttgttttacaaattttatagaatcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 3'ss of exon 4
-------------------------------------------------------------------------tacttgaa-cagtgtgtacatagtgtg--gagtttgatgtatcagcttgttttacaaattttatagaatcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
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gtaagggaatttccatttaacatggtgatggctatattattttttcttccaacattgttatattactatgatatgtttggatcaatgtagcaacagtgttttgagaatgttctcttagacattgtcgca----ttaggtgatatcttgatttatattttgtcattggcttttgcagTACACCCCTGCAATTGATATTTGGAGTGTAGGATGTATATTTGCAGAGCTGCTTACAGGAAAGCCACTCTTTCCAGGGAAAAATGTTGTGCATCAATTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G11470.1 (Glycine max), 3'ss of exon 4
-tacttgaacagtgtgtacatagtgtggagtttgatgtatcagcttgttt---tacaaattttatagaat-cacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
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ctcttcaatcctcctctac-caggattgtgtatgatttatgaagttgaatatatttaagtattgcagtacgtgtacgatttcaaatcc----ttgtcttttgcagTATACCCCCGCAATTGACATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCAGTGGGAAGCCATTGTTTCCTGGAAAAAATGTAGTGCACCAATTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 4
------------tacttgaacagtgtgtacatag----tgtggagtttgatgtatc-agcttgttttacaaattttatagaatcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
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gtaagcttcttttcttttaaca-tattttcttgggttctatataatataagcaattgaacatgcttgatatattgaattatg-catgcaattttaaatttat--ttcctttttgcagTACACCCCTGCAATTGATATTTGGAGCATTGGGTGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 4
--tacttgaacagtgtgtacatagtgtggagtttgatgtatcagcttgttt---tacaaattttatagaatcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
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cctcttcaatcctcctctac-cgggattgtgtatgatttatgaagttgaatatatttaagtattgcactagtgtgtaatttcaaatcc----ttgtcttttgcagTATACGCCTGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCAGTGGGAAGCCATTGTTTCCTGGAAAAAATGTAGTGCACCAATTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 4
--------------tacttgaacagtgtgtacatagtgtggagtttgatgtat-cagcttgttttacaaattttatagaat----cacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
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gtaagtttcttcttttttttaaca-tcttttcttgg-gttgaatataatttaagcaattgaacatacttggtgtattgaaatatgcatgtaattttaaatttat--ttcctttttgcagTACACTCCAGCAATTGATATTTGGAGCATTGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 3'ss of exon 3
tacttgaacagtgtgtacatagtgtggagtttgatgtatcagcttgttttacaaatttt---atagaatcacaaggtt----ctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
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---gtaaaatgcaattctctattttcttttttgcaaaagttgtctgattcacatattatgacaccacaacctgaggttaaaacggattattgctttctttgctgcagTATACTCCTGCCATTGATATATGGAGCATAGGATGCATATTTGCAGAAATGCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 4
-tacttgaacagtgtgtacatagtgtggagtttgatgtatcagcttgttttacaaattttatagaatcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
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ccacttttgta-tgaaggcctgctctagttagctatctacaagtgtgcaggataaggtttgattacagatctgatgctaactctacttttgcgaaatacagTATACCCCTGCGATTGATATTTGGAGCGTTGGTTGCATATTTGCTGAAATGCTATTAGGGAAGCCGCTATTTCCTGGCAAAAATGTGGTTCACCAATTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 3'ss of exon 4
tacttgaacagtgtgtacatagtgtggagtttgatgtatcagcttgttt--tacaaattttatagaatcaca-aggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
|| | | | | | | | || ||| | | | | | | || | | ||| | || |||| || || | | |||||||||||||| ||||| ||||||||||||||| |||| ||||||||||| ||| |||| || || ||||| | ||||| || || ||||| || || || ||||
-gttttatactaatatctgtgttatttatttcgattgaactgatcatacaccataatccctctgaaatggtacagtttctaaagct--tttcatcttttgcagTACACCCCTGCTATTGATATTTGGAGCATAGGATGTATATTTGCGGAAATGCTTACTGGAAAGCCCTTGTTTCCTGGTAAAAATGTGGTCCAGCAATTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 4
----tacttgaacagtgtgtacatagtgtg-gagtttgatgtatcagcttgttttac-aaattttatagaatcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
| | || | | | || | | || | || ||||||| ||| | |||| ||| |||| || | | |||| |||||||||||||| ||||||||||||||| |||| || |||||||| ||| |||| ||||| || || || ||||| ||||| ||||| ||||| |||||||
cttttgatgaaatatgacctctttggtttataaaatttaagtggagttatgttttattaaactatatat-----caaatttcttaaaaccttctccattttt-cagTACACTCCTGCGATTGATATTTGGAGCATAGGATGCATATTTGCAGAAATGCTTACAGGAAAACCGCTGTTTCCGGGGAAAAATGTAGTGCACCAGTTGG
upper sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 3'ss of exon 4
----------tacttgaacagtgtgtacatagtgtggagtttgatgta--tcagcttgttttacaaattttatagaa---tcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
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gtaacactagtgcgctctcgttcagtggaggtcgtggaccatgacacaagttattgggtagaacatatttgtgagtgattttgaataagtgttgttatgtcccttttttttacagTATACTCCTGCGATCGATATCTGGAGTATAGGCTGTATATTTGCGGAAGTGTTGACCGGAAAGCCACTTTTCCCTGGGAAGAATGTTGTTCATCAGCTGGMapped 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|74245616|gb|DT653530.1|DT653530EST: CCACTAGATGGTATCGAGCTCCAGAATTATGTGGCTCCNNNNNNNCAAAG TACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTTGCTGA-TT
genomic: CCACTAGATGGTATCGAGCTCCAGAATTATGTGGCTCCTTTTTTTCAAAGgtgatgtctc ... acttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTT-GCTGAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttacaaattttatagaatcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
cattaac putative branch site (score: 2)
cttttgc CT-rich tract
acaaattttatagaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacttgaacagtgtgtacatagtgtggagtttgatgtatcagcttgttttacaaattttatagaatcacaaggttctgaatctggcattaacttttgcagTACACTCCTGCCATTGATATTTGGAGCGTAGGGTGTATATTTGCTGAATTGCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA