Sequence
atgc intronic sequence ATGC exonic sequencegtctgttagctgaacttccacctctttaaaaagatggcacatgcagcagtttaaacgtagatttacattgaaacttgccactcatttgttgcatgcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 3'ss of exon 7
gtctgttagctgaacttccacctctttaaaaagatggcacatgcagcagtttaaacgtagatttacattgaaacttg-ccactcatttgttgcatgcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
|| || | || | | | | | | | ||| | | |||| ||| ||| ||| ||||||| ||| ||| | |||||||||||||||| || ||||| || |||||||| |||||||||||||| ||||||||||| ||||| | |||| ||||||| | |||||||||||||| |
gtttgcaatttgtccatggattcttctgcagcagtatgccattaaaaaa---aaacttagttttggattaaaacttgtccatgtattcttc---tgcagTATGTGCCGTATGTTGGAGACAGCAAGAGGGCAATGGACGAGTACACCTCAGAGATCTTCATGGGGGGTAAGAGCACCATCGTTCTGCACAACACCTGTG
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
gtctgttagctgaacttccacctctt-taaaaagatggcacatgcagcagttta--aacgtagatttacattg--aaacttgccactca------tttgttgcat--gcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
|| | || | | | || | || || | || | ||| | | ||| ||| | | | || |||||||| | |||||||||||| ||||| || ||||| ||||| || ||||| |||||||| |||||||| || |||||
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G02210.4 (Glycine max), 3'ss of exon 7
gtctgttagctgaacttccacctctttaaaaagatggcacatgcagcagtttaaacgtagatttacattgaaacttgccactcatttgttgcatgcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
| | | ||| | | | | | | || | | |||| || | || ||| ||||||||||||| ||||| || ||||| ||||| || ||||| |||||||| |||||||| || ||||| | ||||||||||| | |||||||||| || |
---------------gtatatttgtttcacccatttttcactatttctttctcttgtcaggtct---ttgattctatctgctttgttgcctt-tgcagTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGTGGAAAGAACACCATTGTTTTGCACAACACATGTG
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT4G39800.1 (Arabidopsis thaliana), 3'ss of exon 7
gtctgttagctgaacttccacctctttaaaaagatggcacatgcagcagttta-aacgtagatttacattgaaacttgccactcatttgttgcatgcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
| || | | | | | || || | ||| || | | |||||| | |||||| || ||||||| ||||| || | ||||||||| | || ||||||||||||||||||||||| || ||||| | |||||||| || || ||||||| |||||||
---------gtaaatagagaaccggacagacactcaaaacctgtttctgttggcaatctgagatcccattgatccaatttgtgtgtttgtt--ttgtagTATGTACCGTATGTTGCGGATAGTAAGCGAGCCATGGACGAGTACACATCAGAGATATTCATGGGAGGGAAGAACACAATTGTGATGCACAATACCTGCG
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 3'ss of exon 7
gtctgttagctgaacttccacctctttaaaaagatggca---catgcagcagtttaaacgtag--atttacattga--aacttgccactcatttgttgca--tgcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
|| | | | | ||| | ||| | || || || |||| || | ||| || || ||| | || |||||| ||||||||||||| || || |||||||| ||||| || ||||| |||||||| || ||||| || ||||| | |||| |||||| ||||||||||||||||||
gtatatcgcagaaccctccttttgtttgtatgtattacaattcagatgctggtttggactcattcattctcactggctaacattatacggtgttgttgatattgcagTATGTGCCATATGTTGGAGATAGCAAGAGAGCCATGGATGAGTACACTTCTGAGATATTCATGGGTGGGAAGAGCACCATTGTGCTGCACAACACCTGCG
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S55_204V6.1 (Physcomitrella patens), 3'ss of exon 6
--------------------gtctgttagctga-acttccacctctttaaaaa---gatggcacatgc--agcagtttaaacgtagatttacattgaaacttgccactcattt------------gttgcatgcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
| | || | || || | || ||| || | | || || | | | | | | || | || || | | | ||||||| || || || ||||| || || |||||||| |||||||||||||| || |||||||| |||||| | ||||| ||| | ||||||| || ||||
gtattcttatctctactccagccctgcagtcaatgttttcaagccatttcggctttgatttcagactccaagttgtctgcattcacaccgattctcgaatcttcctcttaaccaaaatcaatgacggcgtctgcagTACGTCCCTTATGTGGGTGACAGCAAGAGGGCAATGGACGAGTACACTTCGGAGATCTTCATGGGCGGACGTAACACAATCGTCATGCACAATACGTGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagcagtttaaacgtagatttacattgaaacttgccactcatttgttgcatgcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
atttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgttagctgaacttccacctctttaaaaagatggcacatgcagcagtttaaacgtagatttacattgaaacttgccactcatttgttgcatgcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC