Sequence
atgc intronic sequence ATGC exonic sequence...tgattccatctaaatactatagtgttacattaaccgctgcatagtttttatttggattagttaacagtaatattttcccttcccttttgtatgtatctagTGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G109785_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g05650.1 (Oryza sativa), 3'ss of exon 4
tgattccatctaaatactatagtgttacattaaccgctgcatagtttttatttggatta-gttaacagtaatattttcccttcccttttgtatgtatctagTGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT
| ||| || ||||| || | | | | | | | ||| | | | || | | || |||| || | ||| ||| ||||||||| |||||||| |||||||||||||||| || |||| ||| |||||||| | || ||||||||||| ||||| ||||||
-taaaacatttagcaactatcatgcttcttatattgttttggtgatttggataatttcatgtctaatattatctttttccccctcttctgtctgtatctagGGGGCGCAAAGTTGAGGACCCTGACACATTGGAAAAGATACGGCTAACAGTTATTAACAACCTTCTGCAGTATCATCCT
upper sequence: GRMZM2G109785_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv13s0147g00220.t01 (Vitis vinifera), 3'ss of exon 4
--tgattccatctaaatactatagtgttaca-ttaaccgctgcatagtttttatttggat-tagttaacagtaatattttcccttcccttttgtatgtatctagTGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT
| || ||| | ||| | | || || | | | | ||| ||||| | | | | | | | | | | || |||| | ||| ||||| ||||| || |||||||||||||| || ||||| || || ||||||||||||||| | |||| |||||
aatatttgcattagttaagtattttaatccagttgttcaatctttcctgtttttttgggtgttatcatcctttacaaaa-caatgttgattaatatgctagTGATGGACGCAAAGTTGAAGATCCTGACATGTTAGAGAGAATTCGACTTACAATCATCAACAACCTTTTGAAGTATCATCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttatttggattagttaacagtaatattttcccttcccttttgtatgtatctagTGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT
agttaac putative branch site (score: 3)
tattttcccttccctt putative PPT
attagttaacagtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattccatctaaatactatagtgttacattaaccgctgcatagtttttatttggattagttaacagtaatattttcccttcccttttgtatgtatctagTGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT
- - - - - - - - - - - - - - - - -ccgctgc