Sequence
atgc intronic sequence ATGC exonic sequencegtaagcgagcgatctggcccgattcgggctcgaggttttttgattcggtctgtccgattgagcgtgctcgtctgtccgcctgcgtgcgtgctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G143213_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g02680.2 (Oryza sativa), 3'ss of exon 1
gtaagcg-----agcgatctggcccgattcgggctcgaggttttttgattcggtctgtccgattgagcg--tgctcgtctgtccgcctgcgtgcgtgct--------gctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC
|| |||| ||||||||| ||||| | || || | | | || | | | |||| || | | | ||| ||| | | | |||||||||||||| ||||||||| |||||||||||||||||||||||||||| ||||| |||||||| ||||||||||||||||||||||||||||||||| |
gtgagcgcctcgagcgatctgattcgatttctgttcttgggggactcgggggttttgatcctgcaaacctttgcttgtttttgtggctgtgtgtgcggcgggggcggggcgcagTACGAGAAGGAGGAGAAGATTGGGGAGGGCACGTACGGGGTGGTGTACAGGGCGCGGGACAAGGTCACCAACGAGACGATCGCGCTCAAGAAGATCCGGC
upper sequence: GRMZM2G143213_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g01850.2 (Oryza sativa), 3'ss of exon 1
gtaagcgagcgatctggcccgattcgggctcgaggttttttgattcggtctgtccgattgagcgtgctcgtctgtccgcctgcgtgcgtgctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC---
| | ||| | | ||||||| | || ||| | | |||| | | | ||| | ||||||||||| ||| ||||||| || ||||||||||||||||| ||||||||||||| |||||||| ||||||||||||||||||||||||||||||||| |
---------------------gtaagcgcttccagcgatctgattcgattcctcttcttggggg-actcggggttttgat--cctgcaaacctttgcagTACGAGGAGG---AGAAGATTGGAGAGGGCACGTACGGGGTAGTGTACAAGGCGCGGGACAAGGTCACCAACGAGACGATCGCGCTCAAGAAGATCCGGCTTG
upper sequence: GRMZM2G143213_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G08330.1 (Glycine max), 3'ss of exon 1
gtaagcgagcgatctggcccgattcgggctcgaggttttttgattcggtctgtccgattgagcgt-gctcgtctgtccgcctgcgtgcgtgctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC
| | | | | |||||| | | ||| || || | | | || | | | | | | || ||||||||||||||||| |||||||| || ||||| || ||||| || || ||||||| | ||| ||||||||||||| ||||| | |||||||| |||
------------------gttggtaaaacgc-atgcgttttgaagcttccattccatttcagtttcgattttcgattcttttccctc--tact-ctgcagTACGAGAAGGTTGAGAAGATAGGCGAGGGAACATACGGCGTCGTTTACAAGGGTCGCGACCGCTCCACCAACGAGACCATCGCCTTGAAGAAGATTCGCT
upper sequence: GRMZM2G143213_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G14390.1 (Glycine max), 3'ss of exon 1
----gtaagcgagcgatctggc--ccgattcgggctcgaggttttttgattcggtctgtccgattgagcgtgctcgtctgtccgcctgcgtgcgtgctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC
||| || || | | | | | |||| | || | | | | | || | || | || | | ||||||||||||||||||||||||| || ||||| || ||||| || || |||||||| | ||| | |||||| ||||| ||||| ||||||||||| ||||
gttcgtagcaccgcaatgcatcatctctcttcgattttcagtttcctctcaaaaactcacttttcgtgaaaattggttt-tcgatttttttgtttttttttgcagTACGAGAAGGTGGAGAAGATAGGCGAGGGAACATACGGCGTCGTTTACAAGGCTCGCGACCGCGTCACCAATGAGACCATCGCTCTCAAGAAGATTCGCC
upper sequence: GRMZM2G143213_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G03470.1 (Glycine max), 3'ss of exon 1
------gtaagcgagcgatctggcccgattcgggctcgaggtttttt-gattcggtctgtccgattgagcgtgctcgtctgtccgcctgcgtgcgtgctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC
| | |||| | || | ||| || |||| || ||| | | ||| | ||| | | | ||||||||||||||||||||||||| || ||||| || ||||| || || |||||||| | ||| |||||||| ||||| ||||| || |||||||| ||||
gttcctaccacaattcaatcttaacttcatcacattaacattttcttcgattttcactttcc--tctcacaaactcacttttcctttccattttttttttttgcagTACGAGAAGGTGGAGAAGATAGGCGAGGGAACATACGGCGTCGTTTACAAGGCTCGCGACCGCGCCACCAATGAGACAATCGCTCTGAAGAAGATTCGCC
upper sequence: GRMZM2G143213_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S281_23V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaagcgagcgatctggcccgattcgggctcgaggttttttgattcggtctgt---ccgattgagcgtgctcgtctgtccgcctgcgtgcgtgctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC
|| | | |||| || | | || | ||| | | | | | | ||| ||| | || || || |||||| || || ||||||||||| ||||| |||| |||||| |||||||||||||| | ||| | ||||| ||||| || || || |||||||| | |
--ttgctatccatcttcaaactgtctcattttacattctgtgacgaagcccatgtgtcactcacccaatctcctcttgatgatggcaactgtaatgtggcagTATGAAAAAGTGGAGAAGATTGGGGAAGGCATGTACGGAGTGGTGTACAAGGCCCGAGACCGCGTTACCAATGAGACTATTGCTCTAAAGAAGATTAGGC
upper sequence: GRMZM2G143213_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ15022 (Selaginella moellendorffii), 3'ss of exon 1
gtaagcgagcgatctggcccgattcgggctcgaggttttttgattcggtctgtccgattgagcgtgctcgtctgtccgcctgcgtgcgtgctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC
| | ||| |||| |||| | | | | | | | || ||| | || || | | | |||| ||| | |||| |||||||||||||| |||||||| ||||| ||||| || || |||||||| | ||| ||| || |||||||| ||||||||||||||||| |
------gtactgcgaagccgcattc---ttcgatctctctcgttcttgccgctctgatcttac-tgttcttgcgctt-cttgcg-gcgcgt------agTATGAGAAGGTGGAGAAAATCGGGGAAGGCACATACGGCGTCGTCTACAAGGCCCGGGATCGCATCACAAATGAGACGATTGCGCTCAAGAAGATCCGACMapped 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|22542162|gb|BU092600.1|BU092600EST: AGGGACGCAATGGAGCAG TACGAGAATGTGGAAAAGATCGGGGAGGGCACGTACGGGGTGG-GTACAAG
genomic: AGGGACGCAATGGAGCAGgtaagcgagc ... gctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcgagcgatctggcccgattcgggctcgaggttttttgattcggtctgtccgattgagcgtgctcgtctgtccgcctgcgtgcgtgctgctgcagTACGAGAAGGTGGAGAAGATCGGGGAGGGCACGTACGGGGTGGTGTACAAGGCGCTGGACAAGGCCACCAACGAGACGATCGCGCTCAAGAAGATCCGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG