Sequence
atgc intronic sequence ATGC exonic sequencegtgagttcatcctcattcttggatccttcatccttatactcaaatcttcttttattatatatctattactgttccagttattcttttacttacttaagctagcactagtaggcttcaatttgttgtgcctgttcaccctcttgacgaatatctaacattgctttccttacatttagGTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGGTCAGTGTCCACCTGATTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AC203966.5_FGT002 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g64020.1 (Oryza sativa), 3'ss of exon 4
gtgagttcatc----ctcattcttggatccttcatccttatactca---aatcttcttttattatatatctattactgttccagttatt---cttttacttacttaagctagcactagtaggcttcaatttgt--tgtgcctg--ttcaccctcttgacgaatatctaacattgctttccttacatttagGTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGGTCAGT----GTCCACCTGATTCAA--------------------------
|||||||| | |||| ||||| |||||| | ||||| | | | | | | ||| || | | | | || ||| | | || | | | | | ||| || | |||| | | | | | || || | | ||||| | | ||| | | ||||||||||||| ||||| ||||| |||||||| ||||||||||| | |||||||| | | | | | | |||
gtgagttcttttcatctcactcttgcttccttc--caatatacctagctagtatgaaataaatattggactgtcagtataccttttactgtccattgtcctggtgggatttgaactggttgcgacgaattcatcctttatcagactttacttatgtttgtcacctctaatttcgatttgcatgcatttagGTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAGGTAAATTCTTTTTCCTTTCTTCCAATTAATTATTCGACTGACTATTTGACA
upper sequence: AC203966.5_FGT002 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g64020.2 (Oryza sativa), 3'ss of exon 4
gtgagttcat----cctcattcttggatccttcatccttatactca---aatcttcttttattatatatctattactgttccagtta---ttcttttacttacttaagctagcactagtaggcttcaatttgt--tgtgcctg--ttcaccctcttgacgaatatctaacattgctttccttacatttagGTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGGTCAGTGTCCACCTGATTCAA
|||||||| | |||| ||||| |||||| | ||||| | | | | | | ||| || | | | | || ||| | | || | | | | | ||| || | |||| | | | | | || || | | ||||| | | ||| | | ||||||||||||| ||||| ||||| |||||||| ||||||||||| | ||||||
gtgagttcttttcatctcactcttgcttccttc--caatatacctagctagtatgaaataaatattggactgtcagtataccttttactgtccattgtcctggtgggatttgaactggttgcgacgaattcatcctttatcagactttacttatgtttgtcacctctaatttcgatttgcatgcatttagGTTCTTCTTCATCGATGAGTTGACTGGCTTTGAGATCAACATATTCCAG--------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgtgcctgttcaccctcttgacgaatatctaacattgctttccttacatttagGTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGGTCAGTGTCCACCTGATTCAA
tccttac putative branch site (score: 2)
ctttccttacattt CT-rich tract
aatatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttcatcctcattcttggatccttcatccttatactcaaatcttcttttattatatatctattactgttccagttattcttttacttacttaagctagcactagtaggcttcaatttgttgtgcctgttcaccctcttgacgaatatctaacattgctttccttacatttagGTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGGTCAGTGTCCACCTGATTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA