Sequence
atgc intronic sequence ATGC exonic sequence...acccgtatatataccctaccatatttgtgtgctaatgtgcagtctatggttcatgttgtgagtcccatgtacttaattgtggttgtgtttaaatgtgcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G175510_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g34690.1 (Oryza sativa), 3'ss of exon 4
---------------------------------acccgtatatat-accctaccatatttgtgtgctaatgtgcagtctatggttcatgttgtgagtcccatgtacttaattgtggttgtgtttaaatgt---gcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
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gtatgtggaacgttagatgttttctctctgttgagtactactgatgaaattattagtctgatgtgttaaattgccaatattttctgctaatgtatgaatta-gtacttaatctaactttcttgtcactctttggcagTCTATGATTGAGCTAAGCCGTACACAGGATGAAGAAGTTGGTGATGGCACAACATCTGTCATTGTTTTAG
upper sequence: GRMZM2G175510_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G28650.3 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------acccgtatatataccctaccatat-ttgtg-------tgctaatgtgcagtctatggttcatgttgtgagtcccatgta-ctta-----attgtggttgtgtttaaatgtg--cagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
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gtatttgtatcttttgcttcactttattgatattgctgtcacacatacgttatacatactgctatatactgcactgcactccagactatgtcttgtgaaaacatcacttctgtg-aatctaaggcttagtttctctttattgtgaaacttaccaacactgtcctcttattggaatgtatacagTCTATGATTGAGTTAAGTCGCACCCAAGATGAAGAAGTCGGAGATGGAACGACATCTGTCATCATTCTTG
upper sequence: GRMZM2G175510_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G35760.1 (Glycine max), 3'ss of exon 2
acccgtatatataccctaccatatttgtgtgctaa-tgtgcagtctatggttcatgttgtgagtcccatgtactta-attgtggttgtgtttaaatg--tgcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
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----gtgaaaccatggctttctttctatgcattgactttttaaggtttaattgctgtttggtgtgcaattttctaatactgctatattatttggatggatgcagTCTATGATTGAATTGAGTCGCACCCAAGATGAAGAAGTTGGAGATGGAACAACGTCTGTCATCATTCTTG
upper sequence: GRMZM2G175510_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G33380.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------------------acccgtatatataccctaccatatt----tgtgtgctaatgtgcagtcta--tggttcatgttgtgagtcccatgtacttaattgtggttgtgtttaaatgtgcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
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gtatttgtatcttttgcttcgctttattgatattgctttgtcacacatacattatacatactgctatatactgcactgcactccaggctatgtcttgtgaaagcatcacttctgttaatctaaggcttagtttctctttattgtgaaacttaataactctgtttctcttatttgaatgtatacagTCTATGATTGAATTAAGTCGCACCCAAGACGAAGAAGTTGGAGATGGAACAACATCTGTCATCATTCTTG
upper sequence: GRMZM2G175510_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT5G26360.1 (Arabidopsis thaliana), 3'ss of exon 4
acccgtatatataccctaccatatttgtgtgctaatgtgcagtctatggttcatgttgtga--gtcccatgtacttaattgtggttgtgtttaaatgtgcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
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-----------------gttttacttctgacct--ttctctatctattgttcttgttaaaattgttttacttatccatttttgactctggtgat---tgcagTCAATGATTGAGTTGAGCCGTACGCAAGATGAAGAAGTTGGTGATGGGACAACGTCTGTTATTGTTCTAG
upper sequence: GRMZM2G175510_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g08170.t01 (Vitis vinifera), 3'ss of exon 4
acccgtatatataccctaccatatttgtgtgctaatgtgcagtctatggttcatgttgtgagtcccatgtacttaattgtgg-----ttgtgtttaaatgtgcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
| | | || | | | ||| | || | | | ||| || | | | | | | |||| ||||| || | | | | | ||||| ||||||||| |||| || |||||||||||||||||||||||||| ||||| || ||||||||||| |
----atttttttagcttttaaattttttctgttgggcttctgtcaatt-tagttcctcaaaactctgtcatcttagttgtgagttttttatatatgacttgacagTCCATGATTGAATTAAGCCGCACACAAGATGAAGAAGTTGGTGATGGAACTACTTCAGTCATTGTTCTTG
upper sequence: GRMZM2G175510_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv07s0130g00410.t01 (Vitis vinifera), 3'ss of exon 4
------------------------------------------------------------acccgtatatataccctacca--tatttgtgtgctaatgtgcagtctatggttcatgttgtgagtcccatgtacttaattgtggttgtgtttaaatgt--gcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
|| | | ||| | | | | |||| | || | | | | || || | || | | | ||| ||| | ||| | || ||||| |||||||| ||||| || ||||||||||| ||||| || ||||| || |||||||| |||||||| |
gtatgatctctttctttctgtgccccgctggttcttaatatgacatctttttttaattgtactcttttattttgcttttaggttgtttggttactgctct-tgttatgtgattgcctatatgttttctactcttctaacatgtgttctttttgagtggtgacagTCAATGATTGAGCTAAGCCGCACACAAGATGAGGAAGTAGGAGATGGAACAACATCTGTAATTGTTCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggttcatgttgtgagtcccatgtacttaattgtggttgtgtttaaatgtgcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
acttaat putative branch site (score: 4)
tacttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acccgtatatataccctaccatatttgtgtgctaatgtgcagtctatggttcatgttgtgagtcccatgtacttaattgtggttgtgtttaaatgtgcagTCTATGATTGAACTAAGTCGTACACAAGATGAAGAAGTTGGTGATGGCACTACATCTGTCATTGTTCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT