Sequence
atgc intronic sequence ATGC exonic sequencegtactcaaaccactcttgacttttttttgtctttcggctttctcttgctatggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os06g51430.1 (Oryza sativa), 3'ss of exon 9
gtactcaaaccactcttgactttt----ttttgtctttcggctttctcttgctatggcctttgttgataatattt---agttgaggtacgagttttgtttgt---------catgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
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gtaatctagctgctcttgacttttgactttctacatgatggatgttaagctccattgcaagttttcattttactttagcgtggttgttcaagttatctttgtaactgaggccatgaacagGTGGGTTCAGTTCTCCTCAGCTGTGCCTTCTTTTATGACATCTTCTGGGTGTTTGTCTCCAAGAGATGGTTTCATGAGAGCGTGATGATCGTG
upper sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 10
gtactcaaaccactcttgacttttttttgtctttcggctttctcttgctatggcctttgttgataatatttagttgaggtacgagttttgtttgtcatga-tcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
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-ctgacagatcgttgaagagatagctttgc---tggatactactgaacttttattatgaacaaaaacaccta-ctgactgacatataccattttctctgaatcagGTTGGAACTGTTCTTCTCAGTTGTGCCTTCCTATATGACATCTTCTGGGTGTTTGTCTCTAAACGGTGGTTCCATGAGAGTGTGATGATAGTG
upper sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 9
-----------------------------------------------------------------------------------------------gtactcaaaccactcttgacttttttttgtctttcggctttctcttgctatggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
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gtgattatacattacttaagcttgtattttgcacaatcacctacttaggttgtttgttatattcttgaaaattaagcttgggatgcataaaggggacctccatatcagtga-aacatttaaatatggatctactgtctattact--gaccttttttattaacaaaaaacactaatttatacatt-ttttccatg-taagGTTGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
upper sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 9
gtactcaaaccactcttga-cttttttttgtctttcggctttctcttgct-atggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
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-tttttatatttcagtgaaacgattaaatatggatctacagtgtattactgaccatttttattaacaaaaaaga-ctaatttatacattttttccat----gtaagGTCGGAACTGTTCTTCTCAGTTGTGCCTTCCTATACGACATCTTCTGGGTGTTTGTCTCTAAATGGTGGTTCCATGAGAGTGTGATGATAGTG
upper sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA03G01100.1 (Glycine max), 3'ss of exon 9
gtactcaaaccactcttgacttttttttgtctttcggcttt---ctcttgctatggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
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---gacaaatcattgaagacatagctttgctggatactactgaacttttattatgaacaa-aaaagcacccactgaccgacatatacctttttt---tctgaatcagGTTGGAACTGTTCTTCTCAGTTGTGCCTTCCTATATGACATTTTTTGGGTGTTTGTCTCTAAACGGTGGTTCCATGAGAGTGTGATGATAGTG
upper sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
lower sequence: AT1G63690.2 (Arabidopsis thaliana), 3'ss of exon 9
gtactcaaaccactcttgacttttttttgtctttcggctttctcttgctatggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG----
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--------gtaatttcttgaacgtatttatacgtcatcgtagagtttccaaaactttt--tga-aagatt--ataaagccac-attatcacttg----aaacagGTCGGGACAGTTCTTCTCAGCTGTGCCTTCTTGTACGATATCTTCTGGGTGTTTGTCTCCAAGAAGTTGTTCCACGAAAGCGTAATGATTGTCGTAA
upper sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
lower sequence: AT1G63690.1 (Arabidopsis thaliana), 3'ss of exon 9
gtactcaaaccactcttgacttttttttgtctttcggctttctcttgctatggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
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--------gtaatttcttgaacgtatttatacgtcatcgtagagtttccaaaactttt--tga-aagatt--ataaagccac-attatcacttg----aaacagGTCGGGACAGTTCTTCTCAGCTGTGCCTTCTTGTACGATATCTTCTGGGTGTTTGTCTCCAAGAAGTTGTTCCACGAAAGCGTAATGATTGTC
upper sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 7
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 9
gtactcaaaccactcttgacttttttttgtctttcggctttctcttgctatggcctttgttgataatatttagttgaggt-acgagttttgtttgt-catgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
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gctggtagacggatac--aatcatttctgccaatg---tatagaagaccaatctctataataacaatatt-agttatgatgactcattgaactcttacgtaaacagGTCGGGTTTGTTCTTCTCAGCTGTGCCTTCATGTATGACATCTTCTGGGTTTTTGTTTCAAAATGGTGGTTCCGTGAAAGCGTGATGATTGTGMapped 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|32843028|gb|CD982709.1|CD982709EST: GTACCTAACCTCAAG GTGGGTTCGGTTCTTCTTGGCTGTGCCTTCCTGTATGATATCTTCTGGGTG
genomic: GTACCTAACCTCAAGgtactcaaac ... tcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTG
EST:
gi|32848049|gb|CD987730.1|CD987730EST: ACCTAACCTCAAG GTGGGTTCGGTTCTTCTTGGCTGTGCCTTCCTGCATGATATCTTCTGGGTG
genomic: ACCTAACCTCAAGgtactcaaac ... tcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
tgttgat putative branch site (score: 4)
tttgttgataatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactcaaaccactcttgacttttttttgtctttcggctttctcttgctatggcctttgttgataatatttagttgaggtacgagttttgtttgtcatgatcagGTGGGTTCGGTTCTTCTCGGCTGTGCCTTCCTGTATGATATCTTCTGGGTGTTTATCTCCAAGAGATGGTTTCATGAGAGCGTGATGATTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG