Sequence
atgc intronic sequence ATGC exonic sequence...tgaaattatctaattattgtaaaattttgggggacatctgcaggccgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G102756_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
---------------------------------------------tgaaatta--tctaattattgtaaaattttgggggacatctgcaggccgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG
| | ||| ||| |||||| | || || | | |||||||||| || |||||||| ||||||||||||||||||||||||| ||| ||| | |||||||||||||||||||| ||||| |||||||||||||||||| | |
gtatttttgctacgtttagtttgaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT-------------
upper sequence: GRMZM2G102756_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
-------------------------------------------tgaaatta--tctaattattgtaaaattttgggggacatctgcaggccgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG
| | ||| ||| |||||| | || || | | |||||||||| || |||||||| ||||||||||||||||||||||||| ||| ||| | |||||||||||||||||||| ||||| |||||||||||||||||| | |
gtatttgctacatttagtttaaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT-------------
upper sequence: GRMZM2G102756_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 19
---------------------------------------------------tgaaatt----atctaattattgtaaaattttggggg-acat---ctgcaggccgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG
|||| | || | ||| ||||| || | |||| ||||| | || || ||||| ||||||||| | || |||||||| | ||| ||| | ||||||||||||||||| ||||| || || |||||||||||||| | |
gtactgtttctggataattttgccataagagtcatgttctattttattttttgaattccgcaattcatctataagaaaatcttactagtacatggtttgcagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAATCCTATGAAGGACTATACTTTTTCTTGGGTGCAT-------------
upper sequence: GRMZM2G102756_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 17
-----------------------------------------------------------------tgaaattatc-taattattgtaaaa----ttttgggggacat---ctgcaggccgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG
|| || | ||||| ||||| || | |||| ||||| | || || ||||| | ||| ||||| || |||||||| | ||| ||| | |||||||||||||| || ||||| || || |||||||||||||| | |
gtactgtattagggcttggtagtcggtataatgtttccatgatatttttaacaattatctttttttggtttttttataatttcaataaaagaatcttactagtacatgatttgcagACTGCTAAGGAATATTGTGAACAGCTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT-------------
upper sequence: GRMZM2G102756_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
---------------------------------------------------tgaaatt----atctaattattgtaaaattttggggg-acat---ctgcaggccgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG
|||| | || | ||| | ||| || | |||| | ||| | || || ||||| ||||||||| | || |||||||| | ||| ||| | ||||| ||||||||||| ||||| || | |||||||||||||| | |
gtactgtttctgtataatgttgccataagattcatgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG
ggttgat putative branch site (score: 5)
atcaaattatttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaattatctaattattgtaaaattttgggggacatctgcaggccgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG
- - - - - - - - - - - - - - - - - - - tgcaggc
- - - - - - - - - - - - - - - - - - - - - - - - - aagaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcagcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgatg