Sequence
atgc intronic sequence ATGC exonic sequence...agatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATATGTGGTCTGTGGGCTGTATAATGGCTGAGCTTCTTGCCAAAGAACCGTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G179097_T07 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g41100.4 (Oryza sativa), 3'ss of exon 2
--------------------agatcc-tcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATATGTGGTCTGTGGGCTGTATAATGGCTGAGCTTCTTGCCAAAGAACCGTTA
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gtaggtctttggtcaacatcagattcatccccagtgttttggcttgccattaa--tttttccattgtgagctctgttta-tcaatct---gacctgccttt-ttgctccttct-----cagGGCGCCAGAACTATTATTAGGAACGAAGGAATATTCTACCGCCATTGATATGTGGTCTGTGGGCTGCATAATGGCAGAGCTTTTGGCCAAAGAACCATTA
upper sequence: GRMZM2G179097_T07 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G01230.1 (Glycine max), 3'ss of exon 3
agatcctcagcagtgttttggttt-tcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcactt-----ttcttgctccttgtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATATGTGGTCTGTGGGCTGTATAATGGCTGAGCTTCTTGCCAAAGAACCGTTA
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------ttgactttattttactatgtattttagaatgtctcagacatcattcccttgcaatggaagagatcatttagttaataatggttatctatttgtttttcagGGCTCCTGAACTTCTTCTCGGGACAAAACAGTATTCAACAGCCATTGACATGTGGTCTCTGGGTTGTATAATGGCTGAGCTATTGTCCAAGGAACCACTG
upper sequence: GRMZM2G179097_T07 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA11G37270.1 (Glycine max), 3'ss of exon 1
agatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttt----tcttgctccttgtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATATGTGGTCTGTGGGCTGTATAATGGCTGAGCTTCTTGCCAAAGAACCGTTA
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----actttattttactttgtattttagttagaatgtctcagacaccattcccttgcaatggaagagatcatttagttagtaatggttatctatttgttttcagGGCTCCTGAACTTCTTCTGGGGACAAAACAATATTCAACAGCCATTGACATGTGGTCTCTGGGTTGTATAATGGCTGAGCTATTGTCCAAGGAACCTCTA
upper sequence: GRMZM2G179097_T07 (Zea mays), 3'ss of exon 2
lower sequence: Vv17s0000g01810.t01 (Vitis vinifera), 3'ss of exon 2
------agatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATATGTGGTCTGTGGGCTGTATAATGGCTGAGCTTCTTGCCAAAGAACCGTTA
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tttttgtcacccatcaaaaaatgaaaaagaactttttttgttacctatttgtcattagttttagcgagctttaagtaattgtttgatgttatctttg------cagGGCTCCTGAACTTCTGCTGGGAACAAAACAATACTCAACGGCAATTGACATGTGGTCTGTGGGTTGTATAATGGCTGAACTTTTAGCGAAAGAGCCACTAMapped 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|32932651|gb|CF037463.1|CF037463EST: GGATCTGAAGACCTCAAATCTTTTGTTGAATAACCGTG GGCCCCAGAACTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
genomic: GGATCTGAAGACCTCAAATCTTTTGTTGAATAACCGTGgtgagttaaa ... gtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
EST:
gi|32932744|gb|CF037556.1|CF037556EST: GGATCTGAAGACCTCAAATCTTTTGTTGAATAACCGTG GGCCCCAGAACTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
genomic: GGATCTGAAGACCTCAAATCTTTTGTTGAATAACCGTGgtgagttaaa ... gtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATATGTGGTCTGTGGGCTGTATAATGGCTGAGCTTCTTGCCAAAGAACCGTTA
gactcac putative branch site (score: 2)
ctcacttttcttgctc CT-rich tract
aaatcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATATGTGGTCTGTGGGCTGTATAATGGCTGAGCTTCTTGCCAAAGAACCGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - tcagcag
- - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - tctgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaatcaa