Sequence
atgc intronic sequence ATGC exonic sequence...atgaatttgtgtatttttgtcatcggccaatttggccttcttattctgtttattagcgtcacattacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g35530.1 (Oryza sativa), 3'ss of exon 5
atgaatttgtgtatttttgtcatcggccaatttggccttctta-ttctgtttattagcgtcacattacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTAAGAG
| | | || || | || | | | | | ||||| |||| |||||| ||| | | || || | || ||| | | |||||||||||||||||||||||| ||||||||||||| ||||| || | ||| | |||||| |||||| ||||||||| ||| |||||
agcaccgtttgccttctgtgcactgattcgtgttatttctggacttctggttatagatttcacatcactgactcgctt-ctctttctttcttttctcctagGAATTATATCATGAATTGCATACTTTGGATAGATTTGAACAAGACTGTCGTCGTAAACAGCAAGAACTGGATGGTTTGGGTTCAAGAG
upper sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G36210.1 (Glycine max), 3'ss of exon 7
atgaatttgtgtatttttgtcatcggccaatttggccttcttattctgtttattagc--gtcacattacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTAAGAG------
|| | || | | | ||| ||||| |||| | ||| | ||| | || ||| | ||| || ||||||||||||||||||||||||| || |||||||| || || |||||||| | || ||||| | || || | | | |
gcaaaactagacatcctgatggaaagttgattcttatttctt--catgttgaacagctgattttgttaagtcttaatttagtatactttttcctgagtgcagGAATTATATCATGAATTGCATGCCTTAGATAGATTTGATCAAGATTATCGGCGCAAGTTTCAAGAAGAGGACAATTCAAATGCCACACAAAGAG
upper sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G00670.1 (Glycine max), 3'ss of exon 4
atgaatttgtgtatttttgtcatcggccaatttggcctt-----cttattctgtttattagcgtcacat-tacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTA----AGAG--
|| ||||| || ||| || ||||| ||| | |||| | | | | | | || | | |||| || || |||||||||| ||||| |||||||||||||||||||| | ||| ||||||| | ||| | |||| ||||| || || | | ||
-----gccctgcttttttaat-tcattcaactttgcctttatttcttttggtgttggtgggatttatgtctgaaagaaattggaaaatcgatttttatggcctcagGAATTATACCATGAGTTGCATGCTTTGGATAGATTTGCACAAGATTATCAGCATAAGCGTGAAGAGGATGATAATTCAGGTGCAGCTCAAAGTG
upper sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 4
---atgaatttgtgtatttttgtcatcggccaatttggccttcttattctgtttattagcgtcacat-tacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTA----AGAG--
|| |||| || || ||| | | | ||| ||||| || ||||| | | | | | | || | | |||| || || |||||||||| ||||| || ||||||||||||||||| | ||| ||||||| | ||| | |||| ||||| || || | | ||
gccctgcatttt--taattcattcaactgtcttttta--tttctttttgtgtttgtgggatttaagtctgaaagaaattggaaaatcaatttttatggcctcagGAATTATACCATGAGTTACATGCTTTGGATAGATTTGCACAAGATTATCAGCATAAGCGTGAAGAGGATGATAATTCAGGTGCAGCTCAAAGTG
upper sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G16680.1 (Glycine max), 3'ss of exon 3
-atgaatttgtgtatttttgtcatcggccaatttggccttcttattctgtttattagcgtcacattacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTAAGAG
| | || |||| | | |||| | | | || || | | | | | | | || || || | || ||||||| || |||||||| ||||||||||||||||| ||||| ||| || | || | || | || | | ||
aagtgctccatgcatttgcttttttattcaatgtagtaatttt-ttttatgtgggggtttatttctgaaaaaattggacaatcaattttctgtgactgcagGAATTGTACCATGAATTACATGCTTTGGATAGATTTGAACAAGATATTCAGCGCAAGGGTGAGGAGGAGGAGGATCAAAGAG------
upper sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G38370.1 (Glycine max), 3'ss of exon 4
atgaatttgtgtatttt-tgtcatcggccaatttggccttcttattctgtttattagcgtcacattacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTAAGAG
| || ||| | | | ||| | ||| | || | | | ||| || | || | | | | | || ||||||| || |||||||| ||||||||||||||||| ||||| ||| || | || | || | || || | | |||||
acgaccaagtgctccatgcatttgctttttattcaatgtataaatttttttatgtgggggtttatttctaaattggaaaatcaattttctgtggc-tgcagGAATTGTACCATGAATTACATGCTTTGGATAGATTTGAACAAGATATTCAGCGCAAGGGTGAGGAGGAGGAGGG---GGATCAAAGAG
upper sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 4
atgaatttgtg-tatttttgtcatcggccaatttggccttcttattctgtttattagcgtcacattact--tattttttttcttcctac-ttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTAAGAG------
| ||||||| | | | ||| |||| || ||||| | || ||| | | | | | | | | | | ||||| |||||||||||||||| |||||||| ||||| ||||| ||||| |||||||| | || | | ||| | ||| | || | |
--gtatttgtgatgatgacatgatcttgtaatt--gcaagcttatgcaaatttttacgcttaaacagttagcagggaaagacataatgcatcttttggttgcagGAATTATATCATGAGTTGCATGCCTTGGACAGATTTGAACAAGATTATCGGCGCAAGCTTCAGGAAGAGGATAACTCGAATGCAGCTCAACGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtttattagcgtcacattacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTAAGAG
ttacttattttttttc CT-rich tract
acattacttatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaatttgtgtatttttgtcatcggccaatttggccttcttattctgtttattagcgtcacattacttattttttttcttcctacttttttgcacttagGAATTATATCATGAATTGCATGCTTTGGATAGATTGGAACATGATTATCGCCTTAAACAAAAAGAACATGATGGTTTGAGTTTAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - -tgtattt
- - - - - - - - - - - - - - - - - - - - - - tctgttt