Sequence
atgc intronic sequence ATGC exonic sequencegttagttatttccgcaacttcaacacagatgggggtattcatgagtttatcttggaataatcgttctaattaaaatagtcttgtgatgcagGAGATATTGGCGAGTGGCAGCCAGATGGATCCTTAAAAGTGATTGATAGAAAGAAGAATATTTTCAAGCTTTCGCAGGGGGAATACGTTGCAGTGGAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G812228_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os06g06350.2 (Oryza sativa), 3'ss of exon 10
gttagttatttccgcaacttc---aacac---agatgggggtattcatgagtttatcttggaataatcgttctaattaaaatagtct-tgtgatgcagGAGATATTGGCGAGTGGCAGCCAGATGGATCCTTAAAAGTGATTGATAGAAAGAAGAATATTTTCAAGCTTTCGCAGGGGGAATACGTTGCAGTGGAAAA
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gttagctgtttctataatctctgggacatgctagttgactataatggcattatttttttcagatgatgactatatgccaaataccatgtataatacagGGGATGTTGGCGAGTGGCAACCAAATGGGTCCTTGAAAATCATTGACAGGAAGAAAAATATATTCAAGCTTTCACAGGGAGAATATGTTGCAGTAGAAAA
upper sequence: GRMZM5G812228_T01 (Zea mays), 3'ss of exon 10
lower sequence: PP1S47_161V6.1 (Physcomitrella patens), 3'ss of exon 15
-gttagttatttccgcaacttcaacacagatgggggtattcatgagtttatcttggaataatcgttctaattaaaatagtctt-gtgatg-------cagGAGATATTGGCGAGTGGCAGCCAGATGGATCCTTAAAAGTGATTGATAGAAAGAAGAATATTTTCAAGCTTTCGCAGGGGGAATACGTTGCAGTGGAAAA
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caggggctgttcttgaaatatgttgaaaggattatccatctttgggtcgatgaataagtcaatgatgacatagacaagttctttgtgatgtgtgtatcagGCGATATTGGAGAGTGGCAAAAAGATGGTGCTTTGAAGATTATTGATCGCAAGAAGAACATCTTCAAGCTTTCTCAAGGAGAATACGTTGCAGTCGAAAA
upper sequence: GRMZM5G812228_T01 (Zea mays), 3'ss of exon 10
lower sequence: PP1S108_163V6.1 (Physcomitrella patens), 3'ss of exon 15
gttagttatttccgcaacttcaacacagatgggggtattcatgagtttatcttggaataatcgtt--ctaattaaaatagtcttgtgatgcagGA-------GATATTGGCGAGTGGCAGCCAGATGGATCCTTAAAAGTGATTGATAGAAAGAAGAATATTTTCAAGCTTTCGCAGGGGGAATACGTTGCAGTGGAAAA
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gtcaccaatatacgtggaaaaaacgatgcagtttatgtaaacgaatggtgctggaggagagcgctgatgtattctgattcttttataatgcatgaatcagGTGATATTGGAGAGTGGCAGGCAGATGGTAGCATGAAGATTATTGACCGTAAGAAGAATATTTTCAAGCTTTCTCAGGGAGAATATATTGCAGTCGAAAAMapped 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|110964187|gb|EE184087.1|EE184087EST: AAGAGAGGACCTTGAGCAGGAAGTCATGATTGATGGCTGGTTTCACACTG GAGATATTGGCGAGTGGCAGCCAGATGGATCCTTAAAAGTGATTGATAGAA
genomic: AAGAGAGGACCTTGAGCAGGAAGTCATGATTGATGGCTGGTTTCACACTGgttagttatt ... tgtgatgcagGAGATATTGGCGAGTGGCAGCCAGATGGATCCTTAAAAGTGATTGATAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcatgagtttatcttggaataatcgttctaattaaaatagtcttgtgatgcagGAGATATTGGCGAGTGGCAGCCAGATGGATCCTTAAAAGTGATTGATAGAAAGAAGAATATTTTCAAGCTTTCGCAGGGGGAATACGTTGCAGTGGAAAA
ttctaat putative branch site (score: 2)
aataatcgttctaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttatttccgcaacttcaacacagatgggggtattcatgagtttatcttggaataatcgttctaattaaaatagtcttgtgatgcagGAGATATTGGCGAGTGGCAGCCAGATGGATCCTTAAAAGTGATTGATAGAAAGAAGAATATTTTCAAGCTTTCGCAGGGGGAATACGTTGCAGTGGAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA