Sequence
atgc intronic sequence ATGC exonic sequencegtacatttttgtactgaggtgtatgttctgaattttttgttgctctatgcagtattatgatggtgcgttttatggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 7
-gtacatttttgtactgaggtgtatgt-tctgaattttttgttgctctatgcagtattatgatggtgcgttttatggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
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gttttttttttctatccacttttgagtgttccaagtatccacgattctgtgcagtcctaagatggtgtggtc-atggtgaaccagGTCTGGGATTACCAAACGAAGAGCTGTGTTCAGACACTTGAAGGACATACACACAACATTTCTGCTGTTTGTTTCCATCCTGAGCTTCCTATAATCATTA
upper sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
-------------------------gtacatttttgtactgaggtgtatgttctgaattttttgttgctctatgcagtattatgatgg-tgcgttttatggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
|| | |||||| | | || | | | | | | | | | || | || |||| || ||||| || |||| |||||||| ||||| ||||| ||||| ||||| || ||||| || ||||| || | |||||||| || || |||||||| || |||||||||||||
gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatg---aatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
upper sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
-----------gtacatttttgtactgaggtgtatgttctgaattttttgttgctc-tatgcagtattatga-tggtgcgtttta---tggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
| || | | | || ||| | | | | ||| | | | || | | | | | | || |||| |||||||| ||||| ||||| ||||| ||||| || ||||| || ||||| || | |||||||| || || |||||||| || |||||||||||||
gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
upper sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 7
-----------gtacatttttgtactgaggtgtatgttctgaattttttgttgctctatgca-gtattatgatggtgcgttttatggcaa------------agtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
| | || | | | || ||| | |||| | |||| |||| ||| | | ||||| ||| | |||| ||||| || || || ||||| ||||| ||||| || ||||| || ||||| || | ||||||||||| || |||||||| || |||||||||||||
gtttgttttctattttctgtttttttcctcttcatcttccctttaatttggttgcctatatgtgtatatggataggaattattatgccaataaaacctttgaaacagGTATGGGACTATCAAACCAAAAGTTGTGTCCAGACTCTAGAAGGTCACACACACAATGTATCTGCTGTTTGCTTTCATCCTGAACTACCTATAATCATTA
upper sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 7
----------------------------gtacatttttgtactgaggtgtatgttctgaattttttgttgctctatgcagtattatgatggtgcgttttatggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
| ||| || || | || | | || |||| | || || | | ||||||| | | | || || |||| |||||||| || || ||||| ||||| ||||| || ||||| || ||||| || | |||||||| || || |||||||| || |||||||||||||
gtttgttttctattttctgttttttcctcttcatcttccctctaatttg-gtttcctatatttgtatatgga-taggaattattatgccgataaaacctttg---aatcagGTATGGGATTATCAAACCAAAAGTTGTGTCCAGACTCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTACCTATAATCATTA
upper sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 11
---------------------------------------gtacatttttgtactgaggtgtatgttc---tgaattttttgtt----gctctatgcag-------------tattatgatggtgcgttttatggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
||||| | ||| || ||||| | | || ||| ||||| | | ||||| ||| || | | ||| | ||| |||| ||||||||||| || || || || |||||||| || ||||| |||||||| || ||||||| || | ||| ||||| ||||| |||||||| ||||
gtctgtactgagctttcttgcttctttgcaagttgtttgctacatatgtgtgcttgtatgtatctccatttgtattgtttgtatataggttcgtgcagggttttctgtttgtatattgttcataaatttcttctggaagcagGTGTGGGATTACCAAACAAAGAGTTGCGTTCAGACTCTCGAAGGTCATACACACAATGTTTCTGCAGTATCTTTTCATCCAGAGCTACCTATAATTATTA
upper sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 7
gtacatttttgtactgaggtgtatgttctgaattttttgttgctctatgcagtat-tatgatgg-----tgcgtttta----tggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
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----gtgtttat-ctgatgcttattgactaaatagcttccatttatgtgcattccatttgattactttctgtgattaaattttggtggaacagGTGTGGGACTACCAAACCAAAAGTTGTGTTCAGACACTAGAAGGCCACACACACAATGTTTCTTCAGTCTGTTTCCATCCAGAGCTTCCTATTATTTTTAMapped 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|32930849|gb|CF035661.1|CF035661EST: GTGGTGACAGGCCCTATTTGATTACTGGTTCTGATGACTCCACTGCAAAG GTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACA
genomic: GTGGTGACAGGCCCTATTTGATTACTGGTTCTGATGACTCCACTGCAAAGgtacattttt ... ggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACA
EST:
gi|32933566|gb|CF038378.1|CF038378EST: GTGGTGACAGGCCCTATTTGATTACTGNTTCTGATGACTCCACTGCAAAG GTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACA
genomic: GTGGTGACAGGCCCTATTTGATTACTGGTTCTGATGACTCCACTGCAAAGgtacattttt ... ggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaattttttgttgctctatgcagtattatgatggtgcgttttatggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
tattatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatttttgtactgaggtgtatgttctgaattttttgttgctctatgcagtattatgatggtgcgttttatggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT