Sequence
atgc intronic sequence ATGC exonic sequencegtataactttgttcttataattacactatctgtgttatttctgacagcaatatgatatttattttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 15
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 17
--------------------------------gtataactttgttcttataattacactatc---tgtgttatttctgacagcaatatgatatttattttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
| || | | || | | ||||||| ||| | ||| ||| || || | |||||| |||||||||||||||||||| || || |||||||| ||||| ||| ||||||| ||||| ||||||||||| ||||||||||| || ||||| || |
ttcctaagattacatttcttacccctaatgaagagcaaataaatgctggttaaaacactattaaatgtcgagatattgatgctcataaaat-----ttcttgtagGTGGCATCTTGGTGGGACTATGGATACCAAACAACTGCCATGGCTAACCGAACTGTCATTGTTGACAATAATACCTGGAATAACACACATATTGCTACTG
upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 15
lower sequence: GLYMA01G01270.1 (Glycine max), 3'ss of exon 17
---------------------------------gtataactttgttcttataattacactatctgtgttatttctgacagcaatatgatatttattttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
| | || | | || | | |||| | | | | | | | || | |||| || |||||| || ||||||||||||||||| || ||||||||||| ||||| ||| ||||||| ||||| || |||||||| ||||||||||| || ||||| || |
ctccttaagattatttttcttaccccaaatgaagaacaaataaatgctggttaaaacacattataaatgttgagatattgacacataaaatttctt---gtagGTGGCTTCTTGGTGGGACTATGGCTACCAGACAACTGCCATGGCTAACCGAACTGTCATTGTTGATAATAATACCTGGAATAACACACATATTGCTACTG
upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 15
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 17
----------------------------------------------------------------gtataactttgttcttata-attacactatctgtgttatttctgacagcaatatgatatttattttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
|||||| | | | ||| || | | ||| ||| | || || |||| || ||||||||| ||||| ||||||||||||||||||||||| || || ||||| || |||||||| ||||| ||||| || ||||||||||| || ||||||||||| |
gtaagttttttcaacaaaaacaagtcagtttttagttcctgttaagcatcatcctttggtagaggtataagctgtctttaatatatgaagttgcctgagtttgatttg-caaaaataaaat------cttggtagGTGGCATCATGGTGGGACTATGGTTATCAGACGACAGCTATGGCTAATAGAACTGTGATTGTTGACAACAACACATGGAATAATACTCACATTGCAACTG
upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 15
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 17
---------------------------gtataactttgttcttataattacactatctgtgttatttctgacagcaatatgatattta----ttttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
|| || ||| ||| |||| | |||| || | | | | |||| || | | |||||||||||||||||||||||||||| || || ||||| ||||| ||| | ||||||||||||||||||||||| ||||||||||| || |||||||| |
tagcaaatcatttctgatagagtttctagctagctaatgcagtatccttaacctattgaaggtattaaagaaattagt-tcttattggaaacttcttgcagGTTGCATCTTGGTGGGACTATGGTTACCAAACTACTGCTATGGCTAACCGGACTGTTATTGTGGACAATAATACCTGGAATAACACTCATATTGCAACTG
upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 15
lower sequence: PP1S404_37V6.1 (Physcomitrella patens), 3'ss of exon 17
----------------------------gtataactttgttcttataat-tacact-atctgtgttatttctgacagcaatatgatatttattttggt-agGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
|| | || | ||| | | ||| | |||| | || || | | ||| | ||| |||| || || |||||||| ||||| ||||| |||||||||||||| ||||||||||| ||||||||||| || || ||||||||||||||||| || ||||
tcgcatgtttgggttgatcaaccgtcaggtcggaattaggcctttcgttctggactcaggattgttttcattgctcttaacgcg-tgtttgtgttgaccagGTGGCGTCCTGGTGGGATTATGGATATCAAACAACTGCAATGGCGAACAGAACTGTGATTGTGGACAACAACACGTGGAATAACACGCACATAGCTACAG
upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 15
lower sequence: EFJ15189 (Selaginella moellendorffii), 3'ss of exon 17
gtataactttgttcttataattacactatctgtgttatttctgacagcaatatgatatttattttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
| | || | ||| || ||| | || || | | | |||| || || |||||||| ||||| ||||| || || |||||||||||||| ||||| ||||| ||||| || |||||||| || |||||||| || || |
--------------gtctgtttgtggcacatgtatt--ccctgctaaagattcattaagcact---gaagGTGGCGTCGTGGTGGGATTATGGCTATCAAACGACAGCAATGGCAAACAGGACTGTCATTGTAGACAACAACACATGGAACAATACGCACATAGCCACCGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|67014712|gb|CO443461.1|CO443461EST: TCCGCGAAGCTTATGGATGGCTGCGCCATAACACAGATGCAGATGACAAG GTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGA
genomic: TCCGCGAAGCTTATGGATGGCTGCGCCATAACACAGATGCAGATGACAAGgtataacttt ... attttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGA
EST:
gi|33093933|gb|CF053927.1|CF053927EST: TCCGCGAAGCTTATGGATGGCTGCGCCATAACACAGATGCAGATGACAAG GTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGA
genomic: TCCGCGAAGCTTATGGATGGCTGCGCCATAACACAGATGCAGATGACAAGgtataacttt ... attttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataattacactatctgtgttatttctgacagcaatatgatatttattttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
ttctgac putative branch site (score: 2)
tttatttt putative PPT
aatatgatatttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataactttgttcttataattacactatctgtgttatttctgacagcaatatgatatttattttggtagGTTGCATCTTGGTGGGACTATGGTTATCAGACAACTGCAATGGCAAACAGAACTGTTATTGTGGACAATAATACATGGAATAACACGCACATTGCAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA