Sequence
atgc intronic sequence ATGC exonic sequence...aatttaaagatttatttccccaaatgcattgaatttttgaggtttgtatggactccaaatactgaaatgtctctacaataccattccttgaacatcgcagTGGTTCTCAATGAAGCGACAACATGCAATGGTGGTGATTGCAGACAGTCTTTATTACTCAAAATTCAGGCTTTACTGCAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149969_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g12890.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------------------------------------------aatttaaagatttatttccccaaatgcattgaatttt-tgaggtttgtat---ggactccaaata---ctgaaatgtctctacaataccattccttgaacatcgcagTGGTTCTCAATGAAGCGACAACATGCAATGGTGGTGATTGCAGACAGTCTTTATTACTCAAAATTCAGGCTTTACTGCAGG
||||||| | | | ||| |||| || | ||| | | | | |||| ||||| | || || ||| || ||| ||| ||||||||| |||| ||| | |||||||||||||||||| |||| || ||||| |||||| |||||||||||| || ||||| |
gtgagcatcatttttccatgcaagttctcaaactttggattgtgaatcaaactagagaggatacatagtttctgttttgaataaagatgcacaattttagttctattattttttatgtaatatgtcttccaaattttgtctgggtttgaactgtcttca-aacacaatttct-gaatatcacagTGGTTCGCAATCAAGAGGCAACATGCAATGGTGGTGGTTGCGGATAGTCTGTATTACACAAAATTCAGGCGTTTCTGCAAG
upper sequence: GRMZM2G149969_T02 (Zea mays), 3'ss of exon 6
lower sequence: AT4G25870.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------aatttaaagatttatttccccaaatgcattg--aatttttgaggtttgtatggactccaaatactgaaatgtctc--tacaataccattccttgaacatcg---cagTGGTTCTCAATGAAGCGACAACATGCAATGGTGGTGATTGCAGACAGTCTTTATTACTCAAAATTCAGGCTTTACTGCAGG
| ||| | ||| | | || | | | | | ||| | | || | | | | | ||| || | || ||||||||| |||||||||||||||| || || | ||||| || || ||||||| |||||||||||| | || || |
gtaaagacaagctttaatctctaagagcatcttttaatcagtatgctgctactgccataaaataaaacaaacttgagttcttggcaccttttgttgtgtaattgttctctgttcttcttgccagTGGTTCACAATGAAGCGACAACACGCGATTATAGTGATGGCCGATGGTCTTTACTACTCAAAATTCCGCGAGTATTGTGGA
upper sequence: GRMZM2G149969_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv04s0008g02630.t01 (Vitis vinifera), 3'ss of exon 6
aatttaaagatttatttccccaaatgcattgaatttttgaggtttgtatggactccaaata---ctgaaatgtctctacaataccattcct-tgaacatcgcagTGGTTCTCAATGAAGCGACAACATGCAATGGTGGTGATTGCAGACAGTCTTTATTACTCAAAATTCAGGCTTTACTGCAGG
| ||| | || | |||| | | || | | | | | ||||| || || | ||| | | |||| || | |||||||||||| |||||||| || ||||| || | || || ||||||||||| || ||| | ||||||| |||||||||||||
acacaaaaaaaataaataaataaataaaataaa---ataaaagtagagacctttttaaatatttcttgcatataacta-agtttgattcaaatgtgatttgcagTGGTTCTCCATGAAGCGGCAGCATGCTATAATAGTTATGGCAGACAGTCTCTACTACACTAAATTCAAGCTTTACTGCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatggactccaaatactgaaatgtctctacaataccattccttgaacatcgcagTGGTTCTCAATGAAGCGACAACATGCAATGGTGGTGATTGCAGACAGTCTTTATTACTCAAAATTCAGGCTTTACTGCAGG
aaatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttaaagatttatttccccaaatgcattgaatttttgaggtttgtatggactccaaatactgaaatgtctctacaataccattccttgaacatcgcagTGGTTCTCAATGAAGCGACAACATGCAATGGTGGTGATTGCAGACAGTCTTTATTACTCAAAATTCAGGCTTTACTGCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG