Sequence
atgc intronic sequence ATGC exonic sequence...caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacattgccgcttgctgcagTTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g01600.2 (Oryza sativa), 3'ss of exon 1
caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacattgccgct-tgctgcagTTCTTTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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-------atgatttagttgaagaaatgcgtcgtcgtcgagttgtat-agcaacaatgatcaggcactactacttgt-taaagtattaactctctgcagctcttctgtagGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g01600.1 (Oryza sativa), 3'ss of exon 1
----caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacattgccgct-tgctgcagTTCTTTAG-AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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agtactcatcaatgatttagttgaagaaatgcgtcgtcgtcgagttgtat-agcaacaatgatcaggcactactacttgt-taaagtattaactctctgcagCTCTTCTGTAGGAAATGGCTGACGGTGAGGACATCCAGCCTCTTGTCTGTGACAATGGCACTGGAATGGTCAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G15520.1 (Glycine max), 3'ss of exon 1
-caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacattgccgcttgctgcagTTCTTTAGAAA-TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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agagtttgaagtaaaccctcaaagtctgtaaatggctgggttctgtagattgtctattcaaacttggtggtactgacaatttattgtat-gcgtactgtagTTTGGTAAAAAATGGCTGATGCTGAGGATATTCAACCCCTTGTTTGTGACAATGGAACTGGAATGGTGAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G39380.2 (Glycine max), 3'ss of exon 1
caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccata-tgccacattgccgcttgc-tgcagTTCTTTAG----AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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tatagaaaataaacgtaatcttcaaagtctgtaagtggctgggttctgcagattgtc--tattcaaacttgttaatactggcaatttgttctatgcatacagTAGTTTGGTAAAAGATGGCTGATGCTGAGGATATTCAACCCCTTGTCTGTGACAATGGAACTGGAATGGTGAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G39380.1 (Glycine max), 3'ss of exon 1
-caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacattgccgcttgctgcagTTCTTTAGAA-ATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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agaaaataaacgtaatcttcaaagtctgtaagtggctgggttctgcagattgtctattcaaacttgttaatactggcaatttgttctat-gcatacagtagTTTGGTAAAAGATGGCTGATGCTGAGGATATTCAACCCCTTGTCTGTGACAATGGAACTGGAATGGTGAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 1
------caaatccagtcttcct--tttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacattgccgcttgctgcagTTCTTTAGAA-ATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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cttcgttggctgtaaatgtcctggtttcacgggt-tgtccatacaatacaattttgttacttactgacactttacttcat------ggcaccctat-gctttctgtagGTTTGTAAAAGATGGCAGATGCCGAGGATATTCAACCCCTTGTTTGCGACAATGGAACTGGAATGGTCAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G19420.1 (Glycine max), 3'ss of exon 1
caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacatt--gccgcttgctgcagTTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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--tctctagtagtttcaaacttttgatcgttgcttcatcttttctttggttttgttttttatttcctttcctgaacaacttatctcccgttctctgctacagGTTTTAAAAAATGGCTGATGCTGAGGACATTCAACCTCTTGTTGTTGATAATGGAACTGGAATGGTCAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 1
--caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacattgccgcttgctgcagTTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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aataaacgctgctaatcttcgaaactaagttgtgatctgattcgtgtttacttcatgagcttatccaattc-atttcggtttcattttacttttttt-----ttagTGAAAAATGGCCGATGGTGAGGATATTCAGCCACTTGTCTGTGACAATGGAACTGGAATGGTGAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S372_38V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattc-tatccatatgccacattgccgcttgctgcagTTCT----TTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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atcagtctatcgaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttagGTGTTGCAAAGTGGTTGA--GCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 3'ss of exon 2
---caaatccagtcttccttttcattcacatgttgaactaaaac--actttcatcactggttggtatttgattctatccatatgccacattgccgcttgctgcagTTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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cagtatggagggcgttctgtactgtcctgattgcgagacatgttttacgacgaaaatttactgctccttagaactaaaatcttctgaaatggttgggcagGTCGGTA-TTAAGAAATGGCTGACGGTGAGGAAGTACAGCCCTTGGTGTGCGACAATGGAACTGGAATGGTCAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S372_38V6.4 (Physcomitrella patens), 3'ss of exon 1
-caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattc-tatccatatgccacattgccgcttgctgcagTTCT----TTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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ccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagtggttga--gcagGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG
upper sequence: GRMZM2G110378_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S372_38V6.3 (Physcomitrella patens), 3'ss of exon 1
------------caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattc-tatccatatgccacattgccgcttgctgcagTTCT----TTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
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gaatccacctaccaggactaggatcagttgtaatgttcgcctcccttgggataattcatgaaagaagacaaattgtatttcgtgcttaggtgttgcaaagTGGTTGA--GCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGMapped 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|148930312|gb|EE284707.2|EE284707EST: GAGGTTGTCTGGCCGGACGGGGGCCCCGCGGCGGCGCCGGCCTCGATCTG TTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAA
genomic: GAGGTTGTCTGGCCGGACGGGGGCCCCGCGGCGGCGCCGGCCTCGATCTGgtgcgctatg ... cttgctgcagTTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatcactggttggtatttgattctatccatatgccacattgccgcttgctgcagTTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
atttgat putative branch site (score: 5)
tatttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaatccagtcttccttttcattcacatgttgaactaaaacactttcatcactggttggtatttgattctatccatatgccacattgccgcttgctgcagTTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAG
- - - - - - - - - -cattcac
- - - - - - - - - - - - - -tgttgaa
- - - - - - - - - - - - - - - - - ctaaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - -ctggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catatgc