Sequence
atgc intronic sequence ATGC exonic sequence...gcttattacttaaataaatactccaaacaagtgaaaacgtgacaagttggtcagcctatgtgctatttgaatcttattaagttttttctttttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G112672_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g42840.1 (Oryza sativa), 3'ss of exon 6
gcttattacttaaataaatactccaaacaagtgaaaacgtgacaagttggtcagcctatgtgctatttgaatcttattaagttt---tttctttttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC
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-attgctacctttgtacattttacaaactgactagttgctgtga--ttgtttatattattctggctgtttatattattatgtttatattgcacattttacaagACATTTGAGGAGGCCGACACAAAACATGATGGGAAAATTGATAAAGAAGAATGGCGCAATCTAGTTCTCAGACATCCTTCTTTACTGAAAAACATGACAC
upper sequence: GRMZM2G112672_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA07G39940.1 (Glycine max), 3'ss of exon 7
gctta-ttacttaaataaatactccaaacaagt-gaaaacgtgacaagttggtcagcctatgtgctatttgaatcttattaa--gttttttctttttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC
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actgaatttctctgctaaatatagtaaaccttttgtcagccttattcttgtgctactata-atcttctctgtatgtcactgatagttcttaagttattta---gACATTTGAGGAAGCTGATACCAAACATGATGGGAAGATTGACAAGGAAGAATGGCGAAACCTTGTCTTACAGCATCCATCCCTTCTGAAAAATATGACTC
upper sequence: GRMZM2G112672_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA09G01870.2 (Glycine max), 3'ss of exon 7
-------gcttattacttaaataaatactccaaacaagtgaaaacgtgacaagttggtcagcctatgtgctatttgaatcttattaagttttttctttttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC
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aaattatgtatgttgacttgaagattatgccatacaaagttctttgtgctattataatcttct------ctatagagctatcactaactgtacttaaactcttca-gACTTTCGAGGAAGTTGATACAAAACATGATGGGAAGATTGACAAGGAAGAATGGCGAAACCTTGTCTTGCAGCATCCATCCCTTCTAAAAAATATGACTC
upper sequence: GRMZM2G112672_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G08230.1 (Glycine max), 3'ss of exon 8
--------------gcttattacttaaataaata--ctccaaacaagtgaaaacgtgacaagttggtcagcctatgtgctatttgaatcttat-taagttttttc---------tttt---tctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC-
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ttttacccctattcttctatcacttacatttctaagttctaattgtgcacaagaatcttaag--agtctctttttctctttttgaaaactcacatgaatagtttcgacattaaattttggatttcttagaCCTTCGAGGAAGCAGATACAAAGCATGATGGCAAAATTGACAAGGAAGAGTGGAGAAACCTTGTTTTGCGCCATCCGTCACTTTTGAAGAACATGACCCT
upper sequence: GRMZM2G112672_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA17G00830.1 (Glycine max), 3'ss of exon 7
gcttattacttaaataaatactccaaacaagtgaaaacgtgacaagt--tggtcagcctatgtgctatttgaatcttattaa--gttttttctttttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC
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-tgtgtgtgttgagttgataatgatgacattggtacataaaatcattcttgtgctactattatcttctctgtatgtcactgatagttcttgagttattta---gACATTTGAGGAAGCTGATACCAAACATGATGGGAAGATTGACAAGGAAGAATGGCGAAACCTTGTCTTGCGGCATCCATCCCTTCTGAAAAATATGACTC
upper sequence: GRMZM2G112672_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv19s0015g01070.t01 (Vitis vinifera), 3'ss of exon 6
gcttattacttaaataaatactccaaacaagtgaaaacgtgacaagttggtcagcctatgtgctatttg-aatcttattaagttttttctttttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC
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-ctccttggttaagcagcaagttgagggaaactcaatttggattttgtatttgttgcatccatctcttataacctttttttattttggtgcattgttccagACCTTTGAGGAAGCTGACACAAAACATGATGGAAAGATTGACAAAGAAGAGTGGAGAAGCCTTGTTCTACGACACCCATCCCTTTTGAAGAATATGACTCMapped 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|83279282|gb|DV943290.1|DV943290EST: CATTCCAACTTTATGACCTCAAGCAACAAGGCTTCATTGAAAGACAGGAG ACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAA
genomic: CATTCCAACTTTATGACCTCAAGCAACAAGGCTTCATTGAAAGACAGGAGgtatttaact ... tttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttggtcagcctatgtgctatttgaatcttattaagttttttctttttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC
ttttttctttttct CT-rich tract
tatttgaatcttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttattacttaaataaatactccaaacaagtgaaaacgtgacaagttggtcagcctatgtgctatttgaatcttattaagttttttctttttctaaaagACTTTTGAGGAGGCAGACACAAAGCATGATGGGAAAATTGACAAAGAAGAATGGCGCAATTTAGTAGTGAGGCATCCCTCTTTATTGAAGAACATGACAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - -aaataaa
- - - - - - - - - - - ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgcta