Sequence
atgc intronic sequence ATGC exonic sequence...gattcaatattatatctttctcttaatgtcatgttttaatgaacagttgccgtagcttactatgttattagcatggttaaccttttgctgctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g15580.1 (Oryza sativa), 3'ss of exon 5
gattcaatattatatctttctcttaatgtcatgttttaatgaacagttgccg--tagcttactatgttattagcatggttaaccttttgct-gctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
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-ggtcattg--atggcttaatacaaagattcctagttagctgataattaccggctatccctttagttaattaatcccttcattctttttctcaccatttgcagGTTCCAATGTTTGAAAACATGGATGAGAAGCTCTTGGATGCCATGTGTGATCGTCTAAAGCCCATGCTGTACACAGAAGGCAGCTGCATCATTCGCGAAG
upper sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA04G41610.2 (Glycine max), 3'ss of exon 7
gattcaatattatatctttctcttaatgtcatgttttaatgaacagttgccgtagcttactatgttattagcatggttaaccttttgctgctgtttgca-----gGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
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-----taaaccaattattgttgctattggaagttttgaagctatagttcattttccatgtaatattttagtaataactaaaatctttctcttgcatgaacttaagGTGCCAATGTTTGAGAACATGGACGAGCAACTTTTGGATGCTATGTGTGACCGACTCAAGCCAGTGCTATACACAGAAGAAAGCTGCATTGTCCGGGAAG
upper sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA19G44430.1 (Glycine max), 3'ss of exon 6
--------gattcaatattatatctttctcttaatgtcatgttttaatgaacagttgccgtagcttactatgttattagcatggttaaccttttgct--gctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
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gtgagtgtcactcataatcatgtctccccatctatttt---ttttaatc--taactgtagt--ctaattgtgtaatgaacatttttatgttcttattttattgctt-tagGTGCCAATGTTTGAGAAAATGGATGAGCAGTTGTTGGATGCAATGTGTGATAGACTGAAGCCAGTCCTTTATACTGAGAAGAGCTACATTGTTCGTGAAG
upper sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA03G41780.1 (Glycine max), 3'ss of exon 6
--------gattcaatattatatctt----tctcttaatgtcatgttttaatgaacagtt--gccgtagctta-ctatgttattagcatggttaaccttttgct--gctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
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gtgagtgtcactcataatcatgtctccccatctattgtttttttttttttttttttaatctaactgtagtgtaattgtgtaatgaacatttttattttcttattttattgctt-tagGTGCCAATGTTTGAGAAAATGGATGAGCAGTTGTTGGATGCAATGTGCGATAGACTGAAGCCAGTCCTTTACACTGAGAAGAGCTACATTGTTCGTGAAG
upper sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G13200.1 (Glycine max), 3'ss of exon 7
gattcaatattatatctttctcttaatgtcatgttttaatgaacagttgccgtagcttactatgttattagcatggttaa-ccttttgctgctgtttgca-----gGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
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--ttgaaaagtaaaccaat----tatcgttcctattggaagaatagttggttttccatgtaatattttagtaataaccaaatccttctcttttgcatgaacttaagGTGCCAATGTTTGAGAACATGGACGAGCAACTTTTGGATGCTATGTGTGACCGACTCAAGCCAGTGCTGTACACAGAAGAAAGCTGCATTGCCCGGGAAG
upper sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA07G06220.1 (Glycine max), 3'ss of exon 6
gattcaata-ttatatctttctcttaatgtcatgttttaatgaacagttgccgtagcttactatgt-tattagcatggttaacctt--ttgctgctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
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---taagtaactgtatctaagttttgttattttctttttccttctacctat-acatacttctatgtgtatttgtaatgagaattttaccttcttcttgctctagGTGCCAATGTTTGAGAACATGGATAATCAGTTGTTGGATGCACTGTGTGATAAACTGAAGCCAGTCCTTTACACGGAGAAAAGTTACATAGTTCGTGAAG
upper sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 7
----gattcaatattatatctttctcttaatgtcatgttttaatgaacagttgccgtagcttactatgttattagcatggttaaccttttgctgctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
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ttggttttcagcattgtgtgttg-tcttcaagttgattggtaatgcaccattaat-ta--ttactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGGMapped 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|37400168|gb|CF637431.1|CF637431EST: AGAAGAGAGATAAAGAGACATCTTTGTTTGTCACTTCTCATGAAG GTTCCAATGTTNGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGAT
genomic: AGAAGAGAGATAAAGAGACATCTTTGTTTGTCACTTCTCATGAAGgtgcttccct ... ctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGAT
EST:
gi|56691652|gb|CX129555.1|CX129555EST: ATCTTAGAAGAGAGATAAAGAGACATCTTTGTTTGTCACTTCTCATGAAG GTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGAT
genomic: ATCTTAGAAGAGAGATAAAGAGACATCTTTGTTTGTCACTTCTCATGAAGgtgcttccct ... ctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgccgtagcttactatgttattagcatggttaaccttttgctgctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
ggttaac putative branch site (score: 3)
ttactatgttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattcaatattatatctttctcttaatgtcatgttttaatgaacagttgccgtagcttactatgttattagcatggttaaccttttgctgctgtttgcagGTTCCAATGTTTGAAAACATGGATGAACAGCTGTTGGATGCCATGTGTGATCGTCTAAAGCCTATGCTGTACACAGAAGGAAGCTGCATCATTCGCGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC