Sequence
atgc intronic sequence ATGC exonic sequencegtgagcgccgccctgaccccgacggaactctcgtcccatgaatcctacgcatatagtgtagacatattcatgcatctcgtgacacatcgatccttctcgtgacacacagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTACGGTGGACTAACTATCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGACGAGGAGGAGACAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g37210.1 (Oryza sativa), 3'ss of exon 1
------gtgagcgccgccctgaccccgacggaactctcgtcccatgaatcctacgcatatagtgtagacatattcatgcatctcg--tgacacatcgatccttctcgtgacacacagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTACGGTGGACTAACTATCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGACGAGGAGGAGACAAT
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gtgagcgcgcgcgtcagctttgctctgccgccattgatgagc-atgcacaaagctagcttagattagcttatcttatgaatggtaactgatatatccagcttctttgtt-tgtgcagGGCTCTCGAGGTGCGGGAAGAGCTGCCGGCTGCGGTGGACGAACTACCTTAGGCCGGACATCAAGCGTGGTCGCTTCTCCTTCGAGGAGGAGGAGGCCAT
upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv00s0203g00070.t01 (Vitis vinifera), 3'ss of exon 1
gtgagcgccgccctgaccccgacggaactctcgtcccatgaatcctacgcatatagtgtagacatattcatgcatctcgtgacacatcgatccttctcgtgacacacagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTACGGTGGACTAACTATCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGACGAGGAGGAGACAAT
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------gtacgtctgccaccaatga--------ttgagtggcctttttgttca-ggtttgaatatttttttatgggcttagatttaatgggtgttct----gcctctagGGCTGCAAAGGTGCGGTAAAAGCTGCCGTCTCCGGTGGACTAACTACCTGAGGCCAGATATCAAGAGGGGTCGTTTCTCTTTCGAAGAGGAGGAGACAAT
upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S326_37V6.1 (Physcomitrella patens), 3'ss of exon 1
gtgagcgccgccctgaccccgacggaactctcgtcccatgaatcctacgcatatagtgtagacatattcatgcatctcgtgacacatcgatccttctcgtgacacacagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTACGGTGGACTAACTATCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGACGAGGAGGAGACAAT
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---aatgg-gcagtgagatcaatggaatt---gagtcatgtttcagggcgacaaagtagagtttctgtctgcagtcccattctgagtgcgcatttttttt--ctttcagGGCTTGCGAGGTGCGGCAAGAGCTGTAGGCTGCGGTGGACGAACTATCTGAGACCTGACATCAAGCGAGGACGATTCTCTCACGAGGAGGACCAGATGAT
upper sequence: GRMZM2G031323_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S106_216V6.1 (Physcomitrella patens), 3'ss of exon 1
-gtgagcgccgccctgaccccgacggaactctcgtcccatgaatcctacgcatatagtgtagacatattcatgcatctcgtgacacatcgatccttctcgtgacacacagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTACGGTGGACTAACTATCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGACGAGGAGGAGACAAT
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tgtctcatgtgacctgtccgtagtgaactttatggattgtgggaggaatt--tatggtttcagtttgtgctaatat-tcacgagaggtcgcattttctttt-------agGGCTTGCGAGATGCGGCAAAAGCTGTAGATTACGGTGGACAAACTATCTTAGGCCTGACATCAAGCGAGGACGATTTTCGCACGAGGAGGACCAGAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgtagacatattcatgcatctcgtgacacatcgatccttctcgtgacacacagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTACGGTGGACTAACTATCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGACGAGGAGGAGACAAT
tccttctcgt CT-rich tract
atattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcgccgccctgaccccgacggaactctcgtcccatgaatcctacgcatatagtgtagacatattcatgcatctcgtgacacatcgatccttctcgtgacacacagGGCTCGCACGGTGCGGGAAGAGCTGCCGGCTACGGTGGACTAACTATCTGAGGCCGGACATCAAGCGCGGCCGCTTCTCCTTCGACGAGGAGGAGACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA