Sequence
atgc intronic sequence ATGC exonic sequenceACATGCTCGACGAGAACCACGACTGGCACCTCAAGCCCGGCGGACGCTACTTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAAgtcagttcacttctttcttcgccttctctcttctttgttccgttacggttttgtttgacggggtcgtttttgcctag
Basic information
species | Glycine max |
transcript | GLYMA20G32790.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32790.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g73680.1 (Oryza sativa), 5'ss of exon 2
ACATGCTCGACGAGAACCACGACTGGCACCTCAAGCCCGGCGGACGCTACTTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAAgtcagttcacttctttcttcgccttctctcttctttgttccgttacggttttgtttgacggg-gtcgtttttgcctag--------------------------
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CGCTGCTCAGTGAGAACGACGACTGGGACCTGCAGCCTGGTGGCCGCTACTTCTTCACGCGCAACATGTCCTGCTTGATTGCCTTTGCAGTAGGGGAAAAgtaagtcagcgacattggcttctgattatttaacttat--cactaagaatctgc--aacgaatgtggtgttcaaataccatttgaaagtcaatgcctttgattt
upper sequence: GLYMA20G32790.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G04710.1 (Arabidopsis thaliana), 5'ss of exon 2
ACATGCTCGACGAGAACCACGACTGGCACCTCAAGCCCGGCGGACGCTACTTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAAgtcagttcacttctttcttcgc-cttctctcttctttgttccgttacggttttgtt--tgac-----ggggtcgtttttgcctag--------------------------------------------------------------------------------------------------
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ATCTCCTCAGTGAAAACGAAGACTGGAATCTGAAACCTGGTGGCCGTTACTTCTTTACACGAAACATGTCCTGTTTGGTTGCTTTTGCTGTCGGAGAAAAgtgagtcttccgattcaattatgcttccatggtataagatttggtttggctttgataatgaatcctggaactagttcaagctttgataattgaagggttcttcacaaaaatcgttttttttttctttcttagattccttatttgttgggttcagggaacctacatttgttcctcattttgtag
upper sequence: GLYMA20G32790.1 (Glycine max), 5'ss of exon 1
lower sequence: EDP05857 (Chlamydomonas reinhardtii), 5'ss of exon 3
ACATGCTCGACGAGAACCACGACTGGCACCTCAAGCCCGGCGGACGCTACTTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAAgtc--agttcacttctttcttcgccttctctcttctttgttccgttacggttttgtttgacggggtcgtttttgcctag--------------------------------
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-------------------------GTCTGTTCAGCCCGGCGGCCGCTACTTCTTCACACGCAACCTGTCCACCATCGTGGCCTTCGCCGTGGGCCAGCAGTTCAAGCCGGgtgagcagcggaggcgttgggtggactggtttgggggggttgtaaataccagcccaaactaaaccaaagccaacgaaaacgggagtgcaggcagaggcgt
upper sequence: GLYMA20G32790.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S19_2V6.1 (Physcomitrella patens), 5'ss of exon 4
ACATGCTCGACGAGAACCACGACTGGCACCTCAAGCCCGGCGGACGCTACTTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAAgtcagttcacttctttcttcgccttctctcttctttgttccgttacggttttgtttgacggggtcgtttttgcctag-----------------------
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AGCAATTAAGCGAAAGTGAAGAATGGTCATTGCGGCCGGGGGGACGCTACTTTTTCACCCGCAACATGTCTTCCATATTTGCTCTTACCGTTGGTCAGAAgtgtgtgcattttttgcctggttttatgagccgataatccctttctgtttcaacttcgagtcatattttttatgttatatttctagggtgttattgatgaMapped 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|15663255|gb|BI700626.1|BI700626EST: TTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAA GTACAATGTGGGCGACGGCTTTCACGTGATAGCGGCGCACACCGACAGCCC
genomic: TTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAAgtcagttcac ... ttttgcctagGTACAATGTGGGCGACGGCTTTCACGTGATAGCGGCGCACACCGACAGCCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACATGCTCGACGAGAACCACGACTGGCACCTCAAGCCCGGCGGACGCTACTTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAAgtcagttcacttctttcttcgccttctctcttctttgttccgttacggttttgtttgacggggtcgtttttgcctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT