Sequence
atgc intronic sequence ATGC exonic sequencegtacttaccaccttgtttatacataaaatacagtttagaacatcaactatataagtggctctattattgactaatggtaccaataaaattcagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 13
----------------------gtacttaccaccttgtttatacata-aaatacagtttagaacatcaactatataagtggctctattattgactaatggtaccaa--taaaattcagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
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gtaccaaatacttataaaccaagcagttaatacttagcttgtctacacaaatgtagtgtaatgcagtaagcagacttgcagcattgctaatgccttgcatttcggagttgtgatacagATGGGAGGAAGAAACACCGTGCTGCTGGATGCAATAAGTTGGAGGATTCCTTTGGTCAGTGACATACCAACTATTATATTTGGTGCAGATGTCACGCATC
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 13
--------------------------------------------------gtacttac-caccttgtttatacataaaatacagtttagaacatcaactatataagtggctctattattgac----taatggtaccaataaa------attc----agATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
|| ||| | | | | || | || | | | ||| | || || ||||||| | | | | |||||| |||| ||||||||||||||||||| || || |||| || |||||||||||||||| |||| ||||| || ||||| || |||||||| || |||||||| ||||
gtctgttattatcaaatgctcaatcgtattttactatccaaagtgacagggtggctacatgctacactgaaatattgttttcattctcttaactcattcttttatttgtaattattattttcatttcatttgcttaaataaaggatttattcttgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTGGTTAGTGATATTCCAACAATAATATTTGGAGCTGATGTAACTCATC
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 14
gtacttaccaccttgtttatacataaaatacagtttagaacatcaactat-----ataagtggctctatta-ttgactaatggt-accaataa-------aattcagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
| | | ||| ||| || || | ||| || | | || |||| || | | || | | || |||| || | || ||||||||||| ||||||||||| || || || || |||| || || || || ||||| |||||||| ||||| || || ||||| ||||||||||| || |
-------acttttggggtattcatgaattaaaaattaaaattgctattacttttgataaatgctttcaatagctaaatagtggtcacttaccctcctcttgatgcagATGGGAGGTAGAAACACTGTACTTCTTGATGCTGTAAGCTGCAGAATACCATTGGTTAGTGACATACCAACCATAATTTTTGGAGCAGATGTAACCCACC
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 13
-------------------------------------------------------------------gtacttaccaccttgtt-tatacataaa-atacagtttagaacatcaactatataagtggctctattattgactaatggtaccaataaaattc-agATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
||| | | || | ||| ||| | | | | | | || | ||| | | | | | | | || | |||| | || ||||||||||||| ||||| || || |||| || ||||||||||||| || ||||| |||||||| ||||| || || ||||| ||||||||||||||||
gtctgttattatcttataataaaatttaaattatctatcaaaattacattccaaagtaagagagtggttacctgctactcaggaatattcatttctacatattcgccggccttaatt-tattttttcatttttcacttaatatttccttaaatatacttttagATGGGAGGAAGGAACACAGTACTTTTGGATGCCCTAAGTTGGAGGATCCCATTGGTTAGTGACATTCCAACAATAATTTTTGGAGCAGATGTAACACATC
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA05G08170.1 (Glycine max), 3'ss of exon 12
-----------------------------------------------------------gtacttaccaccttgtttatacataaaatacagtt-tagaacatcaactatataagtggctctattattgactaatggtacc---aataaaattc-agATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
| | |||| | | || || || || || | || | | | | | |||| || || | | || |||| | || ||||||||||||| ||||| || || |||| || |||||||||| || || ||||| |||||||| ||||| || || ||||| ||||||||||| ||||
gtctgttattaactatttacaaaatttaaatgatcattcaaaattacaatccaaagtaagagaatggttacttgctactcaggaatattcatttctatattttctcccacct---tttttttatttttcccttaattttccttaaatatacttttagATGGGAGGAAGGAACACAGTACTTTTGGATGCGCTAAGTTGGAGAATCCCATTGGTTAGTGACATTCCAACAATAATTTTTGGAGCAGATGTAACTCATC
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA04G21450.1 (Glycine max), 3'ss of exon 14
--------------------------------------gtacttaccaccttgtttatacataaaatacagtttagaacatcaactatataagtggctctattattgactaatggtacca---------ataaa----------attcagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
| | ||| || | | | | | | | || ||| ||| | | ||| |||| || | | || ||||| || ||||||||||||||||||| || || |||| || |||||||||||||||| | || ||||| || ||||| || |||||||| || |||||||| ||||
gtctgttattattaaatactcaaccatactttacgatccaaagtgacacggtggctgcatgctacac-taatattttacttcagtctcttaactcgttcttttatctgttattattttcatttgcttagataaaggatttattcatgtagATGGGAGGAAGAAACACAGTACTTTTGGATGCTTTAAGTTGGAGGATTCCACTTGTTAGTGATATTCCAACAATAATATTTGGAGCCGATGTAACTCATC
upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 11
----gtacttaccaccttgtttatacataaaata-cagtttagaacatca-actatataagtggctctattat--tgactaatggtaccaataaaattcagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
| ||| | || || | | || | || ||| || || | || | | | | || | || | | | || ||||||| || ||||||||||| || |||| || || ||||| ||||| || || || |||||||| ||||| || |||||||| |||||||| || ||||
tagtctgtttatt-ctttcttaccatctgaagtgtcaaattaaaatatttcaaagcatgaataattacagaatccttacgttttttcttttcatgatgtagATGGGTGGTAGAAACACTGTCCTTTTGGATGCTATCAGTTGCAGGATACCATTAGTTAGTGACATACCAACCATAATATTTGGAGCAGATGTGACGCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacatcaactatataagtggctctattattgactaatggtaccaataaaattcagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
gactaat putative branch site (score: 2)
tattattgactaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttaccaccttgtttatacataaaatacagtttagaacatcaactatataagtggctctattattgactaatggtaccaataaaattcagATGGGAGGAAGAAACACTGTGCTCCTGGACGCAATAAGTTGGAGGATTCCGTTGGTCAGTGACATCCCAACTATTATATTTGGTGCAGATGTAACACATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG