Sequence
atgc intronic sequence ATGC exonic sequence...ttagttaagtttcaaatatgatgtgtgtcttatgtgccatgtgacccaggttagtcagtgatataaatgaaaactttaagttatatcaatatttgtgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G060656_T01 (Zea mays), 3'ss of exon 3
lower sequence: 13114.m00153 (Oryza sativa), 3'ss of exon 12
ttagttaagtttcaaatatgatgtgtgtcttatgtgccatgtgacccaggttagtcagtgatataaatg--aaaactttaagttatatcaatatttg--tgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
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-gaattatatatttt-tgtaccatttgatttggattcgttg-gttataaatca-tgagaagtttgactgctaaagtatttcgttacttccgcatttacttatagGCATCACAACATTGGTGGGAGGTGGAACTGGACCAGCACATGGAACTTGTGCCACAACTTGCACCCCTTCACCATCTCACATGAAACTAATGCTACAGTC
upper sequence: GRMZM2G060656_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 10
------ttagttaagtttcaaatatgatgtgtgtcttatgtgccatgtgacccaggttagtcagtgatataaatgaaaactttaagttatatcaatatttgtgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
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gcattgaaaaccagatttatcattacttatttctctagcatccttcttgatccaaactactcattggattttattcagtcctttt-ctgtattg-----tatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTGCTACAACTTGTACACCAGCACCAAATCAGATGAAATTGATGCTACAATC
upper sequence: GRMZM2G060656_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G10850.1 (Glycine max), 3'ss of exon 9
-------ttagttaagtttcaaatatgatgtgtgtcttatgtgccatgtgacccaggttagtcagtgatataaatgaaaactttaagttatatcaatatttgtgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
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ctctcccctcatctccttttccccagggcagatatcatcagc-ctatat-atgcagatgaatt--tgatggagtttaacgagtcc--ttat-ttactttgtatgtagGCATCACAACATTAGTGGGAGGGGGAACCGGACCGACTGCTGGAACACGCGCCACAACTTGTACACCAGCACCATCTCAGATGAAACTAATGCTGCAATC
upper sequence: GRMZM2G060656_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G27840.1 (Glycine max), 3'ss of exon 9
ttagttaagtttcaaatatgatgtgtgtcttatgtgccatgtgacccaggttagtcagtgatataaatgaaaactt-taagttatatcaatatttgt--gtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
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---cttacatttctcacctcatctccttttccccagggtagatatcagcgtaggcagatgaatttgatggagtttaatgagtccttttgtactttgtatgtagGCATCACAACATTAGTGGGAGGTGGAACCGGACCGACTGCTGGAACACGTGCCACAACTTGTACACCAGCACCATCTCAGATGAAACTAATGCTGCAATC
upper sequence: GRMZM2G060656_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 9
ttagttaagtttcaaatatgatgtgtgtc-ttatgtgccatgtgacccaggttagtcagtgatataaatgaaaactttaagttatatca-atatttgtgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
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--agcagaatctggatgatatggtggatcatttttcattgtgctggttaaaccattttccctttttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaggttagtcagtgatataaatgaaaactttaagttatatcaatatttgtgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
tgatataaatgaaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagttaagtttcaaatatgatgtgtgtcttatgtgccatgtgacccaggttagtcagtgatataaatgaaaactttaagttatatcaatatttgtgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
- - - - - - - - -atgatgt
- - - - - - - - - - - - - - - - - -gccatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgaaaa