Sequence
atgc intronic sequence ATGC exonic sequence...ttctctctctgtttcactttttttgtaccaagggtcctgcgagcctagtgatgttgacatatatctgtcctgttaagctattttttgaaatatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTGGTGCTGCTCGTGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G480607_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 3'ss of exon 5
ttctctctctgtttcactttttttgtaccaagggtcctgcgagc-ctagtgatgttgacatatatctgtcc-tgttaagctattttttgaaatatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTGGTGCTGCTCGTGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTG
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cagttgttcaaggtactatgtcttgcaccaacaatggagtgaaagttagtaattttactgtaaactaatgtatgttaagatatcattgaataaat--ttcagGTCGTAATAAAGAGACATTGCAATGGTCTGCTAGACAAAAGATTGCAGTTGGGGCTGCTCGAGGGCTGCGGTATTTGCATGAAGAATGCAGAGTTGGTTG
upper sequence: GRMZM2G480607_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G03340.2 (Glycine max), 3'ss of exon 3
ttctctctctgtttcactttttttgtaccaagggtcc-tgcgagcctagtgatgt------tgacatatatctgtcctgttaagctattttttgaaatatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTGGTGCTGCTCGTGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTG
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---tattttgattggttaatctttacactgatagtgtattaaaactcattgatttatatagcaaaaaaaatagggatatttaagggattatttgaatt----tgcagGACGAAAGGAGAGCGTACTGGAATGGTCTGCTAGGCAAAAGATTGCAGTTGGAGCAGCTCGTGGCTTGAGATACCTTCACGAAGAATGTAGAGTGGGTTG
upper sequence: GRMZM2G480607_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv11s0016g02430.t01 (Vitis vinifera), 3'ss of exon 4
----ttctctctctgtttcactttttttgtaccaagggtcctgcgagcc-tagtgatgttgacatatatctgtcctgttaagctattttttgaaatatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTGGTGCTGCTCGTGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTG
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caaactaaagtcatgtttcaatatc--cactctaactttgtaatgaaccatactattactgttgtg-gctgagaaaaccaagttttctgttgggaatt--ttcagGACGTGATCGAGGTCTGCTAGAATGGTCTGCACGACAAAAAATTGCAGTTGGAGCTGCTCGAGGATTGAGATATCTTCATGAAGAATGCAGAGTGGGTTGMapped 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|211499478|gb|FL286053.1|FL286053EST: TCTTTGGATTCACATCTCTATG GTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTG
genomic: TCTTTGGATTCACATCTCTATGgtaagaccgt ... tatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTG
EST:
gi|32809375|gb|CD961609.1|CD961609EST: GATCTTTGGATTCACATCTCTATG GTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTG
genomic: GATCTTTGGATTCACATCTCTATGgtaagaccgt ... tatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTG
EST:
gi|32827128|gb|CD966806.1|CD966806EST: GATCTTTGGATTCACATCTCTATG GTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTG
genomic: GATCTTTGGATTCACATCTCTATGgtaagaccgt ... tatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtgatgttgacatatatctgtcctgttaagctattttttgaaatatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTGGTGCTGCTCGTGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTG
tgttgac putative branch site (score: 3)
ttaagctattttttga 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctctctctgtttcactttttttgtaccaagggtcctgcgagcctagtgatgttgacatatatctgtcctgttaagctattttttgaaatatcattcagGTCATAATCGAGAAACATTGGAGTGGACTGCACGACAAAAGATTGCAGTTGGTGCTGCTCGTGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT