Sequence
atgc intronic sequence ATGC exonic sequence...attagaagtgcatttctttaatatataactacaatcttgtatctattcatcataagtgtttatagtgctgaagcaagcgaccataattttctatcaccagGTATGTACTGGAGCTAAGAGCGAGCAGCAATCTAAGCTTGCAGCAAGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 3'ss of exon 3
-----attagaagtgcatttctttaatatataactacaatcttgtatctattcatcataagtgtttatagtgctgaagcaagcgaccataattttctatcaccagGTATGTACTGGAGCTAAGAGCGAGCAGCAATCTAAGCTTGCAGCAAGAAAG
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tttgcttgttaaccaaaatttctctgtgggca-ccatgacctgctagc-atttgtggtgga-attaaaagcatgtttataaat--cttttgttgtcctttaccagGTATGTACTGGGGCAAAGAGCGAACAACAATCAAAGCTTGCAGCAAGAAAG
upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 4
attagaagtgcatttctttaatatataactacaatcttg-tatctattcatcataagtgtttatagtgctgaagcaagcgaccataattttctatcaccagGTATGTACTGGAGCTAAGAGCGAGCAGCAATCTAAGCTTGCAGCAAGAAAG
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aatatggctgttaaccaaaatttctcagtgtccaccgtgatgtctggcatctatggttaaattagaggtctgtttataaatcttttgtgtcctat-accagGTCTGTACTGGGGCAAAGAGTGAACAACAATCCAAGCTTGCAGCAAGAAAG
upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G44460.1 (Glycine max), 3'ss of exon 3
----attagaagtgcatttctttaatatataactacaatcttgtatctattcatcataagtgtttatagtgctgaagcaagcgaccataattttctatcaccagGTATGTACTGGAGCTAAGAGCGAGCAGCAATCTAAGCTTGCAGCAAGAAAG
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cactcacaaaaacaaaccgattcatcaagttgcttca--cttgcttgtgatgggcttctatttcttatgctttttcccctctaaatttaaatggc-atggttaGGTCTGTACTGGAGCTAAGAGCGAGCAACAGTCTAAATTGGCGGCAAGGAA-
upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 3
lower sequence: EFJ36040 (Selaginella moellendorffii), 3'ss of exon 3
attagaagtgcatttctttaatatataactacaatcttgtatctattcatcataagtgtttatagtgctgaagcaagcgaccataattttctatcaccagGTATGTACTGGAGCTAAGAGCGAGCAGCAATCTAAGCTTGCAGCAAGAAAG
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---------------------------------gtagctcgtctctttttcct---tgattttggcgctgtgattcttacgaacggcttgcttgt---agGTTTGCACTGGAGCCAAGAGCGAACAACAATCAAAGCTCGCAGCAAGAAAG
upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 3
lower sequence: EFJ04980 (Selaginella moellendorffii), 3'ss of exon 3
attagaagtgcatttctttaatatataactacaatcttgtatctattcatcataagtgtttatagtgctgaagcaagcgaccataattttctatcaccagGTATGTACTGGAGCTAAGAGCGAGCAGCAATCTAAGCTTGCAGCAAGAAAG
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------------------------------------------------gtagcttgtctcgattttggcgctgtgattcttactaacggcttgcttgtagGTTTGCACTGGAGCCAAGAGCGAACAACAATCAAAGCTCGCAGCAAGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcatcataagtgtttatagtgctgaagcaagcgaccataattttctatcaccagGTATGTACTGGAGCTAAGAGCGAGCAGCAATCTAAGCTTGCAGCAAGAAAG
ttttctatc CT-rich tract
ataattttctatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attagaagtgcatttctttaatatataactacaatcttgtatctattcatcataagtgtttatagtgctgaagcaagcgaccataattttctatcaccagGTATGTACTGGAGCTAAGAGCGAGCAGCAATCTAAGCTTGCAGCAAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA