Sequence
atgc intronic sequence ATGC exonic sequence...attatgaatgttgtcattcatttgttctgtcaatgtaaatttatggattgatgtaaatcagtgtatcgttgaagcctcacagttctgtatctatggacagGCGAGACTAGAAGTAATGGGGAAGAAAGCTAAGAATGCAACCTATATATCTGGAAATGAACCTGGAAGGATATCAAGAGAAGTTTCTAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g56540.1 (Oryza sativa), 3'ss of exon 1
--attatgaatgttgtcattcatttgttctgtcaatgtaaatttatggattgatgtaaatcagtgtatcgttgaagcctcacagttctgtatctatggacagGCGAGACTAGAAGTAATGGGGAAGAAAGCTAAGAATGCAACCTATATATCTGGAAATGAACCTGGAAGGATATCAAGAGAAGTTTCTAAA----------
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atatgatggacagaagattttaatagttttaactgcgtaactttggaaattt-tctatggtgttgaagtttctcagtcct-tactccttactttatgtgcagGCGAGGCTAGAAGTAATGGGGAAGAAAGCCAAGAATGCAACCTACATATCTGGAAATGAAGCCGGGAAGATATCAAGAGAAGTTGCAAAAGTGGAAAAGA
upper sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 1
attatgaatgttgtcattcatttgttctgtcaatgtaaatttatggattgatgtaaatcagtgtatcgttgaagcc------tcacagttctgtatctatggacagGCGAGACTAGAAGTAATGGGGAAGAAAGCTAAGAATGCAACCTATATATCTGGAAATGAACCTGGAAGGATATCAAGAGAAGTTTCTAAA----------
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-----ggaagtagtaattgaactattgcag-attgctctttaattaattgtttctccttgacatatgaatggggtcactttcttacttttacatttttacttgtagGTGAAACTTGAAGTGATGGGGAAAAAGGCAAAGAATGCAACCTATATATCTGGAAATGAAGCAGGGAAGATCTCAAAAGAAATTCAGAAAGTGGAGAAGC
upper sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 2
--attatgaatgtt--gtcattcatttgttctgtcaatgtaaatttatggattgatgtaaatcagtgtatcgttgaagcctcacagttctgtatctatggacagGCGAGACTAGAAGTAATGGGGAAGAAAGCTAAGAATGCAACCTATATATCTGGAAATGAACCTGGAAGGATATCAAGAGAAGTTTCTAAA----------
||| ||| | || ||| ||| | | | | || | || | | ||| | | || || | || | | || ||| || ||| ||||| ||||| || || ||||| ||||||||||||||||||||||||||| | || | ||| |||| |||| || |||
tagttaggaagaattaactgaacaattgctcttttatt----aattgtctgttcttttgaatatggatggggtcactttcttagttttgcttttttacttgaagGTGAAACTCGAAGTGATGGGAAAAAAGGCTAAAAATGCAACCTATATATCTGGAAATGAAGCAGGGAAGATCTCAAAAGAAATTCAGAAAGTGGAGAAGC
upper sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 1
attatgaatgttgtcattcatttgttctgtcaatgtaaatttatggattgatgta-aatcagtgtatcgttgaagcctcacagttctgtatct---atggacagGCGAGACTAGAAGTAATGGGGAAGAAAGCTAAGAATGCAACCTATATATCTGGAAATGAACCTGGAAGGATATCAAGAGAAGTTTCTAAA----------
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----tctttgatacaatggaggtcttatttttattatggcttttgcttgaaccttcaattggggcaatgtacttgccttactatttcttatttcggatttgcagGTGAGACTAGAAGTAATGGGAAAGAAGGCCAAGAATGCAACCTTTATATCTGGAACTGAAGCCGGAAAGATATCTAAAGAGATCCAAAAAGTGGAGAAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattgatgtaaatcagtgtatcgttgaagcctcacagttctgtatctatggacagGCGAGACTAGAAGTAATGGGGAAGAAAGCTAAGAATGCAACCTATATATCTGGAAATGAACCTGGAAGGATATCAAGAGAAGTTTCTAAA
gcctcac putative branch site (score: 3)
atgtaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attatgaatgttgtcattcatttgttctgtcaatgtaaatttatggattgatgtaaatcagtgtatcgttgaagcctcacagttctgtatctatggacagGCGAGACTAGAAGTAATGGGGAAGAAAGCTAAGAATGCAACCTATATATCTGGAAATGAACCTGGAAGGATATCAAGAGAAGTTTCTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT