Sequence
atgc intronic sequence ATGC exonic sequence...gcattgaacagtggattggtatccatggcattcaatcttaacatcaacatgtgttgaagaattgtagggcctaatattgttttatcatgtgccttgtcagGAGATACTTGAAGGAGTCACAAATATTGACTTGGTGATCAATCTCAAGCTCCGAGAAGAAGTTGTGGTTGCAAGATGTCTTGGCAGAAGGATGTGCAGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G081387_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g57540.1 (Oryza sativa), 3'ss of exon 2
gcattgaacagtggattggtatccatg--gcattcaatcttaacatcaacatgtgttgaagaattgtagggcctaat---attgttttatcatgtgccttgtcagGAGATACTTGAAGGAGTCACAAATATTGACTTGGTGATCAATCTCAAGCTCCGAGAAGAAGTTGTGGTTGCAAGATGTCTTGGCAGAAGGATGTGCAGCC
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-----agatgctatttttgtgcctatattgcatatatcgttgaggccaacaatcatcaactacttgttaaatcttatccactggaactattttgtgctttggtagGAGATACTTGAAGGAGTCACGGATATTGATTTGGTCATCAACCTCAAACTCCGAGAAGAGGCTCTGCTTGCAAAATGCCTTGGTAGAAGGATGTGCAGCC
upper sequence: GRMZM2G081387_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G05530.1 (Glycine max), 3'ss of exon 2
gcattgaacagtggattggtatccatggcattcaatcttaacatcaacatgtgttgaagaattgtagggcctaatattgt----tttatcatgtgccttgtcagGAGATACTTGAAGGAGTCACAAATATTGACTTGGTGATCAATCTCAAGCTCCGAGAAGAAGTTGTGGTTGCAAGATGTCTTGGCAGAAGGATGTGCAGCC
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---tgcaacagttctgttgctttc-ttacttttcatagaagcagtttaaaactttaaaaaacggaatactcaaattctacaatgtttttgtttttcgctcgcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTCCGAGAAGATGTTCTGCTTGAGAAATGCCTTGGTAGGAGAATTTGCAATC
upper sequence: GRMZM2G081387_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G36120.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------------gcattgaacagtgg-attggtatccatggcattcaatcttaaca-----tcaacatgtg--ttgaagaattgtagg--gcctaatattgttttatcatgtgccttgtcagGAGATACTTGAAGGAGTCACAAATATTGACTTGGTGATCAATCTCAAGCTCCGAGAAGAAGTTGTGGTTGCAAGATGTCTTGGCAGAAGGATGTGCAGCC
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gtgagtattgatacccacctaatgcccttatattaattagtatatgtgcttgtagttggctgtgatttttcttgggactaactaaccacacaagtggctatattttctgtcctcgacgatttcctgacattcacttttcataactgcgatctacttaaaatgtgcttgaaacctgtgtgctcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTGGTCAATCTGAAGCTCCAAGAAGAAGCACTGCTTGCAAAATGCCTTGGTAGAAGAATTTGTAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacatgtgttgaagaattgtagggcctaatattgttttatcatgtgccttgtcagGAGATACTTGAAGGAGTCACAAATATTGACTTGGTGATCAATCTCAAGCTCCGAGAAGAAGTTGTGGTTGCAAGATGTCTTGGCAGAAGGATGTGCAGCC
gcctaat putative branch site (score: 3)
ccttgtc putative PPT
taatattgttttatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcattgaacagtggattggtatccatggcattcaatcttaacatcaacatgtgttgaagaattgtagggcctaatattgttttatcatgtgccttgtcagGAGATACTTGAAGGAGTCACAAATATTGACTTGGTGATCAATCTCAAGCTCCGAGAAGAAGTTGTGGTTGCAAGATGTCTTGGCAGAAGGATGTGCAGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG