Sequence
atgc intronic sequence ATGC exonic sequencegtatgctagtgctaccctttctgtcttttgaaattacagttcacagttgtgtatctactacacttaatgttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g30020.1 (Oryza sativa), 3'ss of exon 5
gtatgctagtgctaccctttctgtcttttgaaattacagttcacagttgtgtatctactacacttaat--gttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT
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gtatgctattgatacccttattatctttagagatatcact---caatcatgtatataacacgttaaaaagggcgtatattgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTCAAGCCTCATCATATTGCAGCAGGTGCTATCTTTTTGGCTGCTAAATTTCTCAAAGTGAAGCTTCCATCTGAT
upper sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgct--agtgctacc-ctttctgtcttttgaaattacagttcacag-ttgtgtatcta-ctacacttaatgttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT
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gtacgttcaagaactatttccttctaaagcttccaataattctatgtgccttgtattttcgtcttcatacaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
upper sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S264_33V6.3 (Physcomitrella patens), 3'ss of exon 5
---------------gtatgctag--tgctaccctttctgtcttttgaaattacagttcacagttgtgtatctactacacttaatgttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT
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ttagagatttgccaggtaagctatattacagaagaacatgtttaatgagcatgtctgttgcaagtgagaata-gctgaggcaaggggaaagggttgtgcagTCTTCGCACATCGTTGTGCCTGCAATTCAAGCCTCATCATATTGCTGCGGGAGCTATCTTCTTGGCTGCCAAGTTTTTGAAAGTGAATCTGCCCAAAGAT
upper sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S80_193V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------gtatgctagtgctaccctt---tctgtcttttgaaattacagttcacagttgtgtatctactacacttaatgttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT
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ttagagatttgccaggtaagcta-tgttacagaagagcatgtttaatgagcatgtctgttgcaagtgagaatg-gctgaggctaggggaaagggttgtgcagTCTTCGCACATCACTGTGCCTGCAATTCAAGCCTCATCATATTGCTGCGGGAGCTATCTTCTTGGCTGCCAAATTTCTGAAAGTGAACCTACCCAAAGAT
upper sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S86_187V6.1 (Physcomitrella patens), 3'ss of exon 5
---------------gtatgctagt-gctaccctttctgtcttttgaaattacagttcacagttgt-gtatctactacacttaatgttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT
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caagatgccacttttagagatcagcagattaatgttctttgtgctgaaaactgtgaccactgtagtcggaaaggcta-atgtaagggtgattattgtccagACTTCGCACGTCACTTTGCCTGCAATTTAAGCCTCACCACATCGCTGCGGGAGCTATCTTCCTCGCTGCTAAGTTTCTCAAAGTGAATCTGCCGAAGGAGMapped 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|61119518|gb|DN560479.1|DN560479EST: GATAAAAGAAGTCCACTTCCTCAGGTTGCCTGGAATTTTGTAAATGATGG GCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGG
genomic: GATAAAAGAAGTCCACTTCCTCAGGTTGCCTGGAATTTTGTAAATGATGGgtatgctagt ... cactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGG
EST:
gi|78088904|gb|DV517297.1|DV517297EST: GTCCACTTCCTCAGGTTGCCTGGAATTTTGTAAATGATGG GCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGG
genomic: GTCCACTTCCTCAGGTTGCCTGGAATTTTGTAAATGATGGgtatgctagt ... cactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaattacagttcacagttgtgtatctactacacttaatgttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT
acttaat putative branch site (score: 4)
ttaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctagtgctaccctttctgtcttttgaaattacagttcacagttgtgtatctactacacttaatgttgtgcactgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTTGAGCCTCATCATATTGCAGCTGGTGCTATCTATTTGGCTGCTAAATTTCTCAAAGTGAATCTCCCATCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT