Sequence
atgc intronic sequence ATGC exonic sequence...cctaataagcatcaataaagtgaaagataatgtttttgctttttctcttttttccatttacaactcaaataagtttatggaacatatgtcttgcttgcagTGACCGGAAAACTGTGGCCAAAGCTGTATGAAATCAAGGTTTCACCAATAAAGGAACCAATTGAAGAAGGGACCATTGAGCAACTTTGCTTGCCTGAGCC
Basic information
species | Glycine max |
transcript | GLYMA09G24450.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G24450.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g01410.1 (Oryza sativa), 3'ss of exon 10
cctaataagcatcaataaagtgaaagataatgtttttgctttttctcttttttccatttacaactcaa-ataagtttatgg---aacatatgtcttg-cttgcagTGACCGGAAAACTGTGGCCAAAGCTGTATGAAATCAAGGTTTCACCAATAAAGGAACCAATTGAAGAAGGGACCATTGAGCAACTTTGCTT--GCCTGAGCC-
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----gtgagcttttagcattctaatgcgctggtttcatcctagtgaagccatctaaggttcttctgatcatggggcagtggctaatcctattcaatggcttgcagTGACCGGAAAATTGTGGCCAAAGATCTATGAAATTAAGCTACGGCCTGTAGATGGGCCAC---AAGATGGATCTGTAGAGAAGCTATGCCCCAAGGCAAGCTT
upper sequence: GLYMA09G24450.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G011893_T02 (Zea mays), 3'ss of exon 10
cctaataagcatcaataa-----agtgaaagataatgtttttgctttttctcttttttcca-----tttacaactcaaa--taagtttatggaacat-----atgtcttgcttgcagTGACCGGAAAACTGTGGCCAAAGCTGTATGAAATCAAGGTTTCACCAATAAAGGAACCAATTGAAGAAGGGACCATTGAGCAACTTTGCTTGCCTG--AGCC-
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----gtgagctttaattattcccagtgaacactcttttttttaaaatcatttttggtgataagtggccttgagctgaaatttgatctgatgagccttttttggtacggtacttgcagTGACAGGGAAACTGTGGCCAAAGCTATATGAGATCAAGCTACGGGCAGTAGATGGTCCAGC---AGATGGATCTGTAGAAAAGCTTTGTCCAAAAGCCAGCTT
upper sequence: GLYMA09G24450.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 10
cctaataagcatcaataaagtgaaagataatgtttttgctttttctcttttttccatttacaactcaaataagt-ttatggaacatatgtct--tgcttgcagTGACCGGAAAACTGTGGCCAAAGCTGTATGAAATCAAGGTTTCACCAATAAAGGAACCAATTGAAGAAGGGACCATTGAGCAACTTTGCTTGCCTGAGCC
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--catttcccattttccaccttgtatgtaatggcatca-ttatccatgtttcacggtttggttttggtgttcttgttgcaaattatataactgttgtttgcagTGACAGGAAAATTGTGGCCCAAGCTCTATGAAATCAAGGTGCATCCAATGAAGAGACGGTTTCAAGATGGGGTCATTGAGCAGCTTTGCCTTCGGATGCCMapped 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|26268204|gb|CA819267.1|CA819267EST: TCATATTTTGAATGGGATAGCATGGGATGGTGAGCAAAAGCGTATCTTCG TGACCGGAAAACTGTGGCCAAAGCTGTATGAAATCAAGGTTTCACCAATAA
genomic: TAATATTTTGAATGGGATAGCATGGGATGGTGAGCAAAAGCGTATCTTCGgtaagtcccg ... ttgcttgcagTGACCGGAAAACTGTGGCCAAAGCTGTATGAAATCAAGGTTTCACCAATAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttttccatttacaactcaaataagtttatggaacatatgtcttgcttgcagTGACCGGAAAACTGTGGCCAAAGCTGTATGAAATCAAGGTTTCACCAATAAAGGAACCAATTGAAGAAGGGACCATTGAGCAACTTTGCTTGCCTGAGCC
tcttgctt CT-rich tract
tcaaataagtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctaataagcatcaataaagtgaaagataatgtttttgctttttctcttttttccatttacaactcaaataagtttatggaacatatgtcttgcttgcagTGACCGGAAAACTGTGGCCAAAGCTGTATGAAATCAAGGTTTCACCAATAAAGGAACCAATTGAAGAAGGGACCATTGAGCAACTTTGCTTGCCTGAGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catatgt