Sequence
atgc intronic sequence ATGC exonic sequencegtggtgccttccctttgtcttcttcttcctcgttttatcctgtatcatcgctcatcctcactatcatctaaaaatgaaatatgatcagtcatcctctgcatgcatgcccttagccccttaccaaggtgctgctaacacatttactttactcgcctgctcagTCTCTACAAGCCCTTAAGAAGATCTCTCTGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCCCTAATGGCTGTTCTATCGTATCTCGACTTCTTCTCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G374574_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G00530.1 (Glycine max), 3'ss of exon 1
----------------------gtggtgccttccctttgtcttcttcttcctcgttttatcctgtatcatcgctcatcctcactatcatctaaaaatgaaatatgatcagtcatcctctgcatg---catgcccttagccccttaccaaggtg--ctgctaacacatttact--------ttactcgcctgctcagTCTCTACAAGCCCTTAAGAAGATCTCTCTGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCCCTAATGGCTGTTCTATCGTATCTCGACTTCTTCTCCA
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gttattttctcagtcaatctcttttgtgcctttactta---ttatgtatctgtgtcttacgatgtatgagcttcctaagtccttaacccttagttgttgaaaatgggcttccgtcttaaacgaggttcttatcatttgacacaccttacggttttctactttgaattctgatagttgtgattgttgatgtgaacagTCTCTTCAAGCACTAAAGAAGATTTCTCAGGAGCACCCAACTGCCTGTCTTAGAGCTGGAGCTCTGATGGCTGTTCTTTCTTACTTGGACTTCTTCTCAA
upper sequence: GRMZM2G374574_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G00600.2 (Glycine max), 3'ss of exon 1
gtggtgccttccctttgtcttcttcttcctcgttttatcctgtatcatcgctcatcctcactatcatctaaaaatgaaatatgatcagtcatcctctgcatgcatgcccttagccccttaccaaggtgctgctaacacatttactttactcgcctgctcagTCTCTACAAGCCCTTAAGAAGATCTCTCTGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCCCTAATGGCTGTTCTATCGTATCTCGACTTCTTCTCCA
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--------------------------------------gttattttctcactcaatctcttttatgcctttagttattatgt-atctggaattcttttta-----gaattttgtcttactttgaa----ttctgatagatgtgatt-gttgatgtgagcagTCTCTTCAAGCACTAAAGAAGATTTCTCAGGAGCACCCAACTGCCTGTCTTCGAGCTGGAGCTCTGATGGCTGTTCTTTCTTACTTGGACTTCTTCTCGA
upper sequence: GRMZM2G374574_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 1
gtggtgccttccctttgtcttcttcttcctcgttttatcctgtatcatcgctcatcctcactatcatctaaaaatgaaatatgatcagtcatcctctgcatgcatgcccttagccccttaccaaggtgctgctaacacatttactt-tactcgcctgctcagTCTCTACAAGCCCTTAAGAAGATCTCTCTGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCCCTAATGGCTGTTCTATCGTATCTCGACTTCTTCTCCA
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----------------------------------------------gttggctatcat-accaatacttga--atcctcgatgctccagctgcttttttaaaaattcttcagggatcacacttgaaatttgatt-cgtatttatgtatgtgttttaaaacagTCTCTGCAAGCTCTCAAAAAGATATCTCAGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCTCTTATGGCTGTGCTCTCGTATCTGGATTTCTTCTCCA
upper sequence: GRMZM2G374574_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 1
gtggtgccttccctttgtcttcttcttcctcgttttatcctgtatcatcgctcatcctcactatcatctaaaaatgaaatatgatcagtcatcctctgcatgcatgcccttagccccttaccaaggtgctgctaacacatttactttactcgcctgctcagTCTCTACAAGCCCTTAAGAAGATCTCTCTGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCCCTAATGGCTGTTCTATCGTATCTCGACTTCTTCTCCA
|||| | || | || || || || | || | || | | || ||| ||| ||| ||| | | ||| | | | | |||||| | ||||| ||||||||||| |||| ||| |||||||||||||| ||||||||||| || || ||||| || || || ||||| || ||||||||||
------------------------------------ttcctttgccaaattttattgccataatgatgtcaatgt----tacagaaaatttcccattgcctgcctgcttatagtattt----atggtttttgtgatggaaa-----------------cagTCTTTGCAAGCTCTTAAGAAGATATCTCAGGAACACCCAACTGCCTGCTTGCGAGCTGGAGCACTCATGGCAGTGCTTTCATATCTGGATTTCTTCTCCA
upper sequence: GRMZM2G374574_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0023g03830.t01 (Vitis vinifera), 3'ss of exon 1
gtggtgccttccctttgtcttcttcttcctcgttttatcctgtatcatcgctcatcctcactatcatctaaaaatgaaatatgatcagtcatcctctgcatgcatgcccttagccccttaccaaggtgctgctaaca-------catttactttactcgcct------gctcagTCTCTACAAGCCCTTAAGAAGATCTCTCTGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCCCTAATGGCTGTTCTATCGTATCTCGACTTCTTCTCCA
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--------------------------------------------------------------------------tgataaagggctctttgttttctggttgggtgaaataaatttctttggctgtagctgataaaaggctcgccctttgttttgtttgtgacaataagtgcagTCTTTGCAAGCTCTGAAGAAGATATCCCAGGAGCAGCCTACTGCCTGTTTGCGAGCAGGTGCTCTAATGGCAGTGCTTTCTTTTCTTGACTTCTTCCCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccttagccccttaccaaggtgctgctaacacatttactttactcgcctgctcagTCTCTACAAGCCCTTAAGAAGATCTCTCTGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCCCTAATGGCTGTTCTATCGTATCTCGACTTCTTCTCCA
tgctaac putative branch site (score: 1)
ctcgcct putative PPT
atttacttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtgccttccctttgtcttcttcttcctcgttttatcctgtatcatcgctcatcctcactatcatctaaaaatgaaatatgatcagtcatcctctgcatgcatgcccttagccccttaccaaggtgctgctaacacatttactttactcgcctgctcagTCTCTACAAGCCCTTAAGAAGATCTCTCTGGAGCACCCAACTGCCTGTTTGCGAGCTGGTGCCCTAATGGCTGTTCTATCGTATCTCGACTTCTTCTCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT