Sequence
atgc intronic sequence ATGC exonic sequence...tgcataatttagactaaatactgatgagccaagagctgagttaccaacattttgggctgcgttgttgagccttcacttgttttatatggttccttttcagGAGGACTTTTATGCTTTGGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGCATATCAATGCATGGACTAACAGATCGGTATCTTTCTGGTCAGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G060949_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g17600.3 (Oryza sativa), 3'ss of exon 16
-------------------------------tgcataatt--tagactaaat--actgatgagccaa-gagctgagttaccaacattttgggctgcgttgttgagccttcacttgttttatatggt-tccttttcagGAGGACTTTTATGCTTTGGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGCATATCAATGCATGGACTAACAGATCGGTATCTTTCTGGTCAGAAAG
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gttgatatttttggcatttccctttgtaaattggacagttatcctactatatgaactgttgaaatgataaaatgaaatcgctgtgataggaaatggggcttcacaagttcacatgttttgtatcttatatttttcagGAGGACTTCTATGCTATAGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGTATATCAATGCATGGCATAACAGATCGCTATCTTTCTGGTCAGAAGG
upper sequence: GRMZM2G060949_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 16
------tgcataatttagactaa-atactgatgagccaagagctgagttaccaacattttgggctgcgttgttgagccttcacttgttttatatggttccttttcagGAGGACTTTTATGCTTTGGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGCATATCAATGCATGGACTAACAGATCGGTATCTTTCTGGTCAGAAAG
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atagattgagtcatgtagaaaggcatggtaatctccctgcataaaaatccataagattttt--cagcatttacatctacaaatctgctttatatgatt-----tcagGAAGACTTCTATGCTGTTGTGGATTGGGCTTACAAGATTGACCCTTTACGCTGTATATCAATGCACGGAATAACAGAACGCTATCTCTCTGGTCAGAAAG
upper sequence: GRMZM2G060949_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 16
---tgcataatttagactaaatactgatgagccaagagctgagttaccaacattttgggctgcgttgttgagccttcacttgttttatatggttcct--tttcagGAGGACTTTTATGCTTTGGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGCATATCAATGCATGGACTAACAGATCGGTATCTTTCTGGTCAGAAAG
||||||| || | | | ||| || || || || || | ||| || | | ||| |||||| | || |||||||| ||||| |||| | || || |||||| ||| | ||||| || | |||||||||||||||||| ||||| || ||||| |||||||||||||
ttccttataatttga--caatttgtaacgagtttccagatggatt-ttggtatgttaa-tagatttgctgc-tataaagttgctttataatttctctgatttcagGAAGACTTCGCTGCTGTTGTGGATTGGGCACACAAAATTGATCCTTTATGCTGCATATCAATGCATGGAACTACAGAACGCTATCTCTCTGGTCAGAAAG
upper sequence: GRMZM2G060949_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G18840.1 (Glycine max), 3'ss of exon 16
-tgcataatttagactaaatactgatgagccaagagctgagttacca-acattttgggctgcgttgttga--gccttcac-ttgttttatatggttccttttcagGAGGACTTTTATGCTTTGGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGCATATCAATGCATGGACTAACAGATCGGTATCTTTCTGGTCAGAAAG
| | || | | | | || || | || | | | | |||| | | || | || || || |||||||| || |||||| ||||| |||||| | || || ||||||| ||| | || || || | || ||||||||||||||| ||||||| || ||||| |||||||||||||
ttccttataattggtcaggttttgttgtgttgttggcagcgatttagtatatttaaaaatccagcatttacagctaccaaactgctttatatgatt-----tcagGAAGACTTCTATGCTGTTGTGGATTGGGCATATAAGATTGACCCTTTACGCTGTATATCAATGCATGGAATAACAGAACGCTATCTCTCTGGTCAGAAAG
upper sequence: GRMZM2G060949_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 16
--tgcataatttagactaaat-actga-tgagccaagagctgagttaccaacattttgggctgcg-ttgttgagccttcacttgttttatatggttccttttcagGAGGACTTTTATGCTTTGGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGCATATCAATGCATGGACTAACAGATCGGTATCTTTCTGGTCAGAAAG
| || || | | || | | | | | | | | || ||| | | | | || || | | |||||| || ||| |||| ||||||||||| |||| || ||||||| |||| | ||||| ||| | ||||||||||||||||| | ||||| |||||| |||||||||||||||
gactcttatgctatggtggtttaccaagttaatctccaaagtaactccaaaaattccaagttttgactagcgaaatttgtcattttttatgtgattct-----agGAAGACTTTTATGCAGTGGTGGATTGGGCATACAAGATTGATCCTTTGCGCTGCATATCAATGCATGGGATTACAGAACGGTATATTTCTGGTCAGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacattttgggctgcgttgttgagccttcacttgttttatatggttccttttcagGAGGACTTTTATGCTTTGGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGCATATCAATGCATGGACTAACAGATCGGTATCTTTCTGGTCAGAAAG
ttccttttc CT-rich tract
ttgttttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcataatttagactaaatactgatgagccaagagctgagttaccaacattttgggctgcgttgttgagccttcacttgttttatatggttccttttcagGAGGACTTTTATGCTTTGGTTGACTGGGCATTCAAGCTAGATCCATTGAGTTGCATATCAATGCATGGACTAACAGATCGGTATCTTTCTGGTCAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
tgcataa
- - - - - - - - - - ctgatga
- - - - - - - - - - - - - - - - - - - - - accaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - -gggctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgttga