Sequence
atgc intronic sequence ATGC exonic sequence...tttgtccttctcatattgatgttaggtagttccagttggttttgattccttttgtttccatccaaacattgtctcctaacttctcatatggttttggtagGATATTTTGGACTTGGCAAAATATGCATATGTACCTGTCATAAATGGTCTCACTGACTATAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G157210_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g47590.1 (Oryza sativa), 3'ss of exon 2
tttgtccttctcatattgatgttaggtagttccagttggttttgattccttttgtttccatccaaacattgtc------tcctaacttctcatatggttttggtagGATATTTTGGACTTGGCAAAATATGCATATGTACCTGTCATAAATGGTCTCACTGACTATAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
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----ttattcccattctgcacccatgcattgctcgtagaattcaactgaaggtgattcca-ccaagcattctcatatcttcctaacaacttatatgatcttg-cagGACATTTTGGACTTGGCAAAGTATGCAGCTGTACCTGTCATAAATGGCCTTACGGACTACAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
upper sequence: GRMZM2G157210_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 2
tttgtccttctcatattgatgttaggtagttccagt--tggttttgattccttttgtttccatccaaacattgtctcctaacttctcatatggttttg--------gtagGATATTTTGGACTTGGCAAAATATGCATATGTACCTGTCATAAATGGTCTCACTGACTATAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
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----------tgggaggaatttttatctgctccagagatgtgatcaatcattatgaaagaaaaatgagcactttttgcttacctttttttttgtgttgaaaaaattgtagGACATACTTGATCTTGCAAAATATGCAACTGTGCCAGTCATCAATGGGTTGACAGACTACAACCATCCCTGCCAGATAATGGCTGATGCCCTTACCATGG
upper sequence: GRMZM2G157210_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G03360.1 (Glycine max), 3'ss of exon 2
-tttgtccttctcatattgatgttaggtagttccagttggttttgattccttttgtttccatccaaacattgtctcctaacttctcatatggttttggtagGATATTTTGGACTTGGCAAAATATGCATATGTACCTGTCATAAATGGTCTCACTGACTATAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
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attggtttgggaggaatttttatgtgttcaatc-attatgacagaaaacgaaaaatgagcacttttgggttaccattttttttgtgttaaaaaaactgtagGACATACTTGATCTTGCAAAATATGCTACTGTGCCAGTCATCAATGGGTTGACAGACTACAACCATCCCTGCCAGATAATGGCTGATGCCCTTACCATGG
upper sequence: GRMZM2G157210_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv18s0001g12780.t01 (Vitis vinifera), 3'ss of exon 2
tttgtccttctca---tattgatgttaggtagttccagttggttttgattccttttgtttccatccaaacattgtctcctaacttctcatatggttttggtagGATATTTTGGACTTGGCAAAATATGCATATGTACCTGTCATAAATGGTCTCACTGACTATAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
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-gtatgctggtgagttttttaatgtttggtagtactca--gatttcaattggtcttgcatatgtgtatttaaagaaggtagatatattccacttctgttgcagGACATTCTTGATCTGGCTAAATATGCAACTGTACCTGTCATCAATGGCCTGACAGACTACAATCATCCCTGCCAAATAATGGCTGATGCCCTCACAATAA
upper sequence: GRMZM2G157210_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S189_99V6.1 (Physcomitrella patens), 3'ss of exon 7
tttgtccttctcatattgatgttaggtagttccagttggttttgattccttttgtttccatccaaacattgtctcctaac--ttctcatatggttttggtagGATATTTTGGACTTGGCAAAATATGCATATGTACCTGTCATAAATGGTCTCACTGACTATAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
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--aaggatttgaatgttagtccttatagagaatggtgagaatacacttatcttttctatgtaccttgcttaacttctaaaagcgctgatctggtgaatgcagGATCTGCTGGATTTGGCAGAATATTCTAAGATTCCCGTCATCAATGGACTTACTGACTATAACCACCCTTGCCAGATCATGGCTGACGTCCTAACTATTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccttttgtttccatccaaacattgtctcctaacttctcatatggttttggtagGATATTTTGGACTTGGCAAAATATGCATATGTACCTGTCATAAATGGTCTCACTGACTATAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
tcctaac putative branch site (score: 1)
tttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtccttctcatattgatgttaggtagttccagttggttttgattccttttgtttccatccaaacattgtctcctaacttctcatatggttttggtagGATATTTTGGACTTGGCAAAATATGCATATGTACCTGTCATAAATGGTCTCACTGACTATAACCATCCATGCCAGATAATGGCTGATGCACTTACTATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT