Sequence
atgc intronic sequence ATGC exonic sequence...actcttaacttctgatgaattatcctgacatgaggcatattctattttgctggcattatgtggagataaacttaattactgattaccctttctgtatcagGGGAGTGGAGCCATCCTGCTCTTCAGCAGATATTAAGAAGGCATACCGGAAAGCTGCATTGAGACATCACCCAGACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G110587_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g31062.1 (Oryza sativa), 3'ss of exon 5
actcttaacttctgatgaattatcctgacatgaggcatattctattttgctggcattatgtgga-gataaacttaattactgattaccctttctgtatcagGGGAGTGGAGCCATCCTGCTCTTCAGCAGATATTAAGAAGGCATACCGGAAAGCTGCATTGAGACATCACCCAGACAAG
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tcatctatattttaatgagacgaagcaa-attaataatctcttattatgtggagatagcttaattagttgtttctcttctctcctgccccctcttttgcagGGGAATTGAACCATCTTCATCTCCAGCAGATATTAAGAAGGCATACCGGAAGGCTGCACTGAGGCATCACCCAGATAAG
upper sequence: GRMZM2G110587_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G02420.1 (Glycine max), 3'ss of exon 10
actcttaacttctgatgaattatcctgacatgaggcatattc-tattttgctgg--cattat-gtggagataaacttaattactgattaccctttctgtatcagGGGAGTGGAGCCATCCTGCTCTTCAGCAGATATTAAGAAGGCATACCGGAAAGCTGCATTGAGACATCACCCAGACAAG
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----gtatgacagaaaacataatgccagctaaacttatgttcctaatgtagggaaatattatcattcatttaaggctatcagctaactgacattatgatgacagGGGAGTTGAACCATCTGTTTCGATATCTGAAATCAAGAAGGCCTATCGGAAAGCTGCACTTAGACACCACCCAGACAAG
upper sequence: GRMZM2G110587_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA11G10100.1 (Glycine max), 3'ss of exon 11
-actcttaacttctgatgaattatcctgacatgagg-catattctattttgctggcattatgtggagataaacttaattactgattaccctttctgtatcagGGGAGTGGAGCCATCCTGCTCTTCAGCAGATATTAAGAAGGCATACCGGAAAGCTGCATTGAGACATCACCCAGACAAG
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gacagaaaacataatgccagctaaaaagttatttgttcctaatgtagggaaataatatcattc--atttaaggctatcagctaactgacattatgatggcagGGGAGTTGAACCATCTGTTTCGATATCTGAAATCAAGAAGGCCTATCGGAAAGCTGCACTGAGACACCACCCGGACAAG
upper sequence: GRMZM2G110587_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s0252g00060.t01 (Vitis vinifera), 3'ss of exon 8
actcttaacttctgatgaattatcctgacatgaggcatattctattttgctggcattatgtggagataaactt--aattactgattaccctttctgta---tcagGGGAGTGGAGCCATCCTGCTCTTCAGCAGATATTAAGAAGGCATACCGGAAAGCTGCATTGAGACATCACCCAGACAAG
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----atgttgcccataggattgaaggcttttgagtctcattc-agcttcctgacaccatgtttctgcaagcttctaattcagtatctcaaattttataatgccagGGGAATTAAACCATCTGAGACAGCAGCTGATATCAAGAAGGCATACCGGAAAGCTGCACTTAGACATCATCCAGACAAG
upper sequence: GRMZM2G110587_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0061g00090.t01 (Vitis vinifera), 3'ss of exon 8
actcttaacttctgatgaattatcctgacatgaggcatattctatttt--gctggc--attatgtggagataaacttaattactgattaccctttctgtatcagGGGAGTGGAGCCATCCTGCTCTTCAGCAGATATTAAGAAGGCATACCGGAAAGCTGCATTGAGACATCACCCAGACAAG
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-ctttaaaatgct--tgtgttagtgcaacttgcttcctctggaaattgcgatcagttaatcttgtgattctaaaatcatgtgatgtccaaa-tcttaatgacagGGGAGTTGAACCATCTGCCTCGGCATCAGATATTAAGAAGGCATATCGGAAAGCTGCACTTAGACATCATCCTGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgctggcattatgtggagataaacttaattactgattaccctttctgtatcagGGGAGTGGAGCCATCCTGCTCTTCAGCAGATATTAAGAAGGCATACCGGAAAGCTGCATTGAGACATCACCCAGACAAG
tactgat putative branch site (score: 2)
ttaccctttct CT-rich tract
agataaacttaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actcttaacttctgatgaattatcctgacatgaggcatattctattttgctggcattatgtggagataaacttaattactgattaccctttctgtatcagGGGAGTGGAGCCATCCTGCTCTTCAGCAGATATTAAGAAGGCATACCGGAAAGCTGCATTGAGACATCACCCAGACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - -ctgatga
- - - - - - - - - - - - -tgacatg
- - - - - - - - - - - - - - - - - - - - - - - - gctggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgatt